{"id":61785,"url":"https://github.com/servierhub/top-life-sciences","name":"top-life-sciences","description":"Top Life Sciences open-source software","projects_count":201,"last_synced_at":"2026-08-07T21:00:40.283Z","repository":{"id":242152435,"uuid":"808825423","full_name":"servierhub/top-life-sciences","owner":"servierhub","description":"Top Life Sciences open-source 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by starred repositories"],"sub_categories":[],"readme":"\u003c!--author=\"Hubert Tournier\"--\u003e\n\n\n\n\n\n\n\n\n[![Servier Contributed](https://raw.githubusercontent.com/servierhub/.github/main/badges/contributed.svg)](https://github.com/ServierHub/)\n# Top life sciences open source software\nThis is an automatically generated[^1] **ranked list** of [open source](https://opensource.org/osd) software from\n[pharmaceutical companies](https://en.wikipedia.org/wiki/List_of_pharmaceutical_companies) and cross organizations,\n[biotechnology companies](https://en.wikipedia.org/wiki/Category:Biotechnology_companies),\nresearch institutes,\nopen source communities and individuals,\nplus some life-science software from technological companies.\n\nIt's made from a **curated** list of [GitHub accounts](Results/SOURCES.md), and will be periodically refreshed from these sources' repositories.\n\nYou can also access [what they have updated lately](Results/NEW.md)\nand [which topics are covered](Results/TOPICS.md) by these software.\n\n## Ranked by starred repositories\n\u003e [!NOTE]\n\u003e \u003cimg src=\"https://github.com/HubTou/topgh/blob/main/icons/gstars.png\"\u003e **stars** - number of people who especially appreciated the repository\u003cbr\u003e\n\u003e \u003cimg src=\"https://github.com/HubTou/topgh/blob/main/icons/forks.png\"\u003e **forks** - number of people who have cloned the repository in order to modify it\u003cbr\u003e\n\u003e \u003cimg src=\"https://github.com/HubTou/topgh/blob/main/icons/watchers.png\"\u003e **watchers** - number of people who are monitoring changes in the repository\u003cbr\u003e\n\u003e \u003cimg src=\"https://github.com/HubTou/topgh/blob/main/icons/code.png\"\u003e **main programming language**\u003cbr\u003e\n\u003e \u003cimg src=\"https://github.com/HubTou/topgh/blob/main/icons/license.png\"\u003e **license**\u003cbr\u003e\n\u003e \u003cimg src=\"https://github.com/HubTou/topgh/blob/main/icons/last.png\"\u003e **last update date \u0026 time**\u003cbr\u003e\n\n|Rank|Software|\n|---|:---|\n|1|[**google-deepmind/alphafold**](https://github.com/google-deepmind/alphafold)\u003cbr\u003eOpen source code for AlphaFold.\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 11987 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 2135 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 226 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache-2.0 license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-04-05 09:45:53 |\n|2|[**deepchem/deepchem**](https://github.com/deepchem/deepchem)\u003cbr\u003eDemocratizing Deep-Learning for Drug Discovery, Quantum Chemistry, Materials Science and Biology\u003cbr\u003e`biology`, `deep-learning`, `drug-discovery`, `hacktoberfest`, `materials-science`, `quantum-chemistry`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 5220 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 1626 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-08 13:03:11 |\n|3|[**biopython/biopython**](https://github.com/biopython/biopython)\u003cbr\u003eOfficial git repository for Biopython (originally converted from CVS)\u003cbr\u003e`bioinformatics`, `biopython`, `dna`, `genomics`, `phylogenetics`, `protein`, `protein-structure`, `python`, `sequence-alignment`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 4213 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 1728 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 168 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Unknown LICENSE |\n|4|[**google/deepvariant**](https://github.com/google/deepvariant)\u003cbr\u003eDeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.\u003cbr\u003e`bioinformatics`, `deep-learning`, `deep-neural-network`, `deepvariant`, `dna`, `genome`, `genomics`, `machine-learning`, `ngs`, `science`, `sequencing`, `tensorflow`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 3100 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 698 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 159 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e BSD-3-Clause license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-03-19 19:20:10 |\n|5|[**facebookresearch/esm**](https://github.com/facebookresearch/esm)\u003cbr\u003eEvolutionary Scale Modeling (esm): Pretrained language models for proteins\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 2917 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 577 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 63 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2022-10-18 13:38:47 |\n|6|[**aqlaboratory/openfold**](https://github.com/aqlaboratory/openfold)\u003cbr\u003eTrainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2\u003cbr\u003e`alphafold2`, `protein-structure`, `pytorch`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 2572 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 466 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-04 08:33:28 |\n|7|[**rdkit/rdkit**](https://github.com/rdkit/rdkit)\u003cbr\u003eThe official sources for the RDKit library\u003cbr\u003e`c-plus-plus`, `cheminformatics`, `python`, `rdkit`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 2483 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 845 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e HTML \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e BSD 3-Clause \"New\" or \"Revised\" License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-08 03:18:22 |\n|8|[**AstraZeneca/awesome-explainable-graph-reasoning**](https://github.com/AstraZeneca/awesome-explainable-graph-reasoning)\u003cbr\u003eA collection of research papers and software related to explainability in graph machine learning.\u003cbr\u003e`awesome-list`, `deep-learning`, `explainable-ai`, `explainable-ml`, `graph`, `graph-algorithms`, `graphml`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1941 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 129 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2022-04-04 14:54:08 |\n|9|[**OpenGene/fastp**](https://github.com/OpenGene/fastp)\u003cbr\u003eAn ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)\u003cbr\u003e`adapter`, `bioinformatics`, `duplication`, `fastq`, `filter`, `filtering`, `illumina`, `merging`, `ngs`, `overlap`, `polyg`, `preprocessing`, `qc`, `quality`, `quality-control`, `sequencing`, `splitting`, `trimming`, `umi`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1803 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 333 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C++ \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-04-07 08:16:11 |\n|10|[**scverse/scanpy**](https://github.com/scverse/scanpy)\u003cbr\u003eSingle-cell analysis in Python. Scales to \u0026gt;1M cells.\u003cbr\u003e`anndata`, `bioinformatics`, `data-science`, `machine-learning`, `python`, `scanpy`, `scverse`, `transcriptomics`, `visualize-data`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1789 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 579 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e BSD 3-Clause \"New\" or \"Revised\" License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-07 08:43:34 |\n|11|[**lh3/minimap2**](https://github.com/lh3/minimap2)\u003cbr\u003eA versatile pairwise aligner for genomic and spliced nucleotide sequences\u003cbr\u003e`bioinformatics`, `genomics`, `sequence-alignment`, `spliced-alignment`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1708 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 396 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-22 19:58:33 |\n|12|[**allenai/scispacy**](https://github.com/allenai/scispacy)\u003cbr\u003eA full spaCy pipeline and models for scientific/biomedical documents.\u003cbr\u003e`bioinformatics`, `biomedical`, `custom-pipes`, `nlp`, `scientific-documents`, `spacy`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1629 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 221 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 52 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache-2.0 license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-03-08 05:57:56 |\n|13|[**broadinstitute/gatk**](https://github.com/broadinstitute/gatk)\u003cbr\u003eOfficial code repository for GATK versions 4 and up\u003cbr\u003e`bioinformatics`, `dna`, `gatk`, `genome`, `genomics`, `ngs`, `science`, `sequencing`, `spark`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1621 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 577 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 156 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Java \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e specific \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-12-13 22:53:56 |\n|14|[**bioconda/bioconda-recipes**](https://github.com/bioconda/bioconda-recipes)\u003cbr\u003eConda recipes for the bioconda channel.\u003cbr\u003e`bioinformatics`, `conda`, `hacktoberfest`, `package-management`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1595 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 3089 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 96 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Shell \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license |\n|15|[**samtools/samtools**](https://github.com/samtools/samtools)\u003cbr\u003eTools (written in C using htslib) for manipulating next-generation sequencing data\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1572 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 572 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-07 09:32:59 |\n|16|[**Slicer/Slicer**](https://github.com/Slicer/Slicer)\u003cbr\u003eMulti-platform, free open source software for visualization and image computing.\u003cbr\u003e`3d-printing`, `3d-slicer`, `c-plus-plus`, `computed-tomography`, `image-guided-therapy`, `image-processing`, `itk`, `kitware`, `medical-image-computing`, `medical-imaging`, `national-institutes-of-health`, `neuroimaging`, `nih`, `python`, `qt`, `registration`, `segmentation`, `tcia-dac`, `tractography`, `vtk`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1521 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 520 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 38 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C++ \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e specific |\n|17|[**lh3/bwa**](https://github.com/lh3/bwa)\u003cbr\u003eBurrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)\u003cbr\u003e`bioinformatics`, `fm-index`, `genomics`, `sequence-alignment`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1468 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 547 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e GNU General Public License v3.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-04-15 02:54:32 |\n|18|[**DeepGraphLearning/torchdrug**](https://github.com/DeepGraphLearning/torchdrug)\u003cbr\u003eA powerful and flexible machine learning platform for drug discovery\u003cbr\u003e`deep-learning`, `drug-discovery`, `graph-neural-networks`, `pytorch`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1407 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 194 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 31 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache-2.0 license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-07-16 22:37:17 |\n|19|[**lh3/seqtk**](https://github.com/lh3/seqtk)\u003cbr\u003eToolkit for processing sequences in FASTA/Q formats\u003cbr\u003e`bioinformatics`, `sequence-analysis`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1332 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 310 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-10-24 15:01:39 |\n|20|[**galaxyproject/galaxy**](https://github.com/galaxyproject/galaxy)\u003cbr\u003eData intensive science for everyone.\u003cbr\u003e`bioinformatics`, `dna`, `genomics`, `hacktoberfest`, `ngs`, `pipeline`, `science`, `sequencing`, `usegalaxy`, `workflow`, `workflow-engine`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1329 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 967 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 69 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e specific \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-07 13:56:26 |\n|21|[**schrodinger/fixed-data-table-2**](https://github.com/schrodinger/fixed-data-table-2)\u003cbr\u003eA React table component designed to allow presenting millions of rows of data.\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1290 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 289 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e JavaScript \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-23 05:13:10 |\n|22|[**soedinglab/MMseqs2**](https://github.com/soedinglab/MMseqs2)\u003cbr\u003eMMseqs2: ultra fast and sensitive search and clustering suite\u003cbr\u003e`alignment`, `bioinformatics`, `blast`, `linclust`, `metagenomics`, `mmseqs`, `profile-search`, `sequence-clustering`, `sequence-search`, `taxonomy`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1281 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 181 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e GNU General Public License v3.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-23 07:07:21 |\n|23|[**facebookresearch/fastMRI**](https://github.com/facebookresearch/fastMRI)\u003cbr\u003eA large-scale dataset of both raw MRI measurements and clinical MRI images.\u003cbr\u003e`convolutional-neural-networks`, `deep-learning`, `fastmri`, `fastmri-challenge`, `fastmri-dataset`, `medical-imaging`, `mri`, `mri-reconstruction`, `pytorch`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1259 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 370 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 74 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-06-26 17:17:06 |\n|24|[**greenelab/deep-review**](https://github.com/greenelab/deep-review)\u003cbr\u003eA collaboratively written review paper on deep learning, genomics, and precision medicine\u003cbr\u003e`deep-learning`, `genomics`, `manubot`, `manuscript`, `neural-networks`, `review`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1235 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 271 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 129 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e HTML \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Unknown LICENSE.md \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2018-03-12 15:06:48 |\n|25|[**shenwei356/seqkit**](https://github.com/shenwei356/seqkit)\u003cbr\u003eA cross-platform and ultrafast toolkit for FASTA/Q file manipulation\u003cbr\u003e`bioinformatics`, `cross-platform`, `fasta`, `fastq`, `golang`, `manipulation`, `sequence`, `tool`, `toolkit`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1226 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 157 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 26 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Go \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-17 15:59:35 |\n|26|[**MultiQC/MultiQC**](https://github.com/MultiQC/MultiQC)\u003cbr\u003eAggregate results from bioinformatics analyses across many samples into a single report.\u003cbr\u003e`analysis`, `bioconda`, `bioinformatics`, `data-visualization`, `multiqc`, `pypi`, `python`, `quality-control`, `reporting`, `seqera`, `vizualisation`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1185 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 582 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 37 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e JavaScript \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e GPL-3.0 license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-31 18:30:12 |\n|27|[**dcm4che/dcm4che**](https://github.com/dcm4che/dcm4che)\u003cbr\u003eDICOM Implementation in JAVA\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1165 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 637 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 119 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Java \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e specific \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-04-22 10:59:11 |\n|28|[**scverse/scvi-tools**](https://github.com/scverse/scvi-tools)\u003cbr\u003eDeep probabilistic analysis of single-cell and spatial omics data\u003cbr\u003e`cite-seq`, `deep-generative-model`, `deep-learning`, `human-cell-atlas`, `scrna-seq`, `scverse`, `single-cell-genomics`, `single-cell-rna-seq`, `variational-autoencoder`, `variational-bayes`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1149 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 342 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e BSD 3-Clause \"New\" or \"Revised\" License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-05 17:01:13 |\n|29|[**vgteam/vg**](https://github.com/vgteam/vg)\u003cbr\u003etools for working with genome variation graphs\u003cbr\u003e`dna`, `genome-graph`, `genomics`, `graph`, `variation-graph`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1072 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 191 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 48 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C++ \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e specific \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-20 18:50:28 |\n|30|[**schrodinger/pymol-open-source**](https://github.com/schrodinger/pymol-open-source)\u003cbr\u003eOpen-source foundation of the user-sponsored PyMOL molecular visualization system.\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1071 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 260 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-06 19:36:48 |\n|31|[**scipipe/scipipe**](https://github.com/scipipe/scipipe)\u003cbr\u003eRobust, flexible and resource-efficient pipelines using Go and the commandline\u003cbr\u003e`bioinformatics`, `bioinformatics-pipeline`, `cheminformatics`, `dataflow`, `fbp`, `go`, `golang`, `pipeline`, `scientific-workflows`, `scipipe`, `workflow`, `workflow-engine`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 1055 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 72 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 38 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Go \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2021-10-14 09:11:34 |\n|32|[**shenwei356/csvtk**](https://github.com/shenwei356/csvtk)\u003cbr\u003eA cross-platform, efficient and practical CSV/TSV toolkit in Golang\u003cbr\u003e`bioinformatics`, `command-line`, `cross-platform`, `csv`, `golang`, `tool`, `toolkit`, `tsv`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 972 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 85 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 25 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Go \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-29 15:30:38 |\n|33|[**bigdatagenomics/adam**](https://github.com/bigdatagenomics/adam)\u003cbr\u003eADAM is a genomics analysis platform with specialized file formats built using Apache Avro, Apache Spark, and Apache Parquet. Apache 2 licensed.\u003cbr\u003e`avro`, `big-data`, `bioinformatics`, `genomics`, `java`, `parquet`, `python`, `r`, `scala`, `spark`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 967 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 304 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Scala \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-03-23 13:27:52 |\n|34|[**broadinstitute/cromwell**](https://github.com/broadinstitute/cromwell)\u003cbr\u003eScientific workflow engine designed for simplicity \u0026 scalability. Trivially transition between one off use cases to massive scale production environments\u003cbr\u003e`application`, `bioinformatics`, `cloud`, `containers`, `docker`, `executor`, `ga4gh`, `hpc`, `scala`, `wdl`, `workflow`, `workflow-description-language`, `workflow-execution`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 965 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 351 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 112 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Scala \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e BSD-3-Clause LICENSE.txt \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-07 17:47:13 |\n|35|[**hail-is/hail**](https://github.com/hail-is/hail)\u003cbr\u003eCloud-native genomic dataframes and batch computing\u003cbr\u003e`bioinformatics`, `genetics`, `genomics`, `gwas`, `hail`, `python`, `software`, `vcf`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 946 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 238 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 55 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-05 17:48:05 |\n|36|[**broadinstitute/picard**](https://github.com/broadinstitute/picard)\u003cbr\u003eA set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 944 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 365 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 160 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Java \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-11-14 22:01:18 |\n|37|[**aqlaboratory/proteinnet**](https://github.com/aqlaboratory/proteinnet)\u003cbr\u003eStandardized data set for machine learning of protein structure\u003cbr\u003e`dataset`, `deep-learning`, `machine-learning`, `protein-sequence`, `protein-structure`, `proteins`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 849 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 130 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2020-11-18 23:43:32 |\n|38|[**shenwei356/rush**](https://github.com/shenwei356/rush)\u003cbr\u003eA cross-platform command-line tool for executing jobs in parallel\u003cbr\u003e`bioinformatics`, `command`, `cross-platform`, `execute`, `golang`, `parallel`, `pipeline`, `shell`, `windows`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 834 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 63 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 20 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Go \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-11-13 17:53:58 |\n|39|[**evo-design/evo**](https://github.com/evo-design/evo)\u003cbr\u003eDNA foundation modeling from molecular to genome scale\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 832 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 97 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Jupyter Notebook \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-04-30 22:35:34 |\n|40|[**PaddlePaddle/PaddleHelix**](https://github.com/PaddlePaddle/PaddleHelix)\u003cbr\u003eBio-Computing Platform Featuring Large-Scale Representation Learning and Multi-Task Deep Learning “螺旋桨”生物计算工具集\u003cbr\u003e`biocomputing`, `ddi`, `deeplearning`, `dti`, `graph-networks`, `machine-learning`, `molecule-design`, `ppi`, `protein-design`, `protein-docking`, `protein-folding`, `protein-structure-prediction`, `representation-learning`, `rna-structure-prediction`, `self-supervised-learning`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 799 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 188 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 25 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache-2.0 license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-08-01 09:31:36 |\n|41|[**samtools/htslib**](https://github.com/samtools/htslib)\u003cbr\u003eC library for high-throughput sequencing data formats\u003cbr\u003e`bam`, `bcf`, `bioinformatics`, `cram`, `htslib`, `ngs`, `sam`, `vcf`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 779 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 448 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-06 15:40:15 |\n|42|[**google/nucleus**](https://github.com/google/nucleus)\u003cbr\u003ePython and C++ code for reading and writing genomics data.\u003cbr\u003e`bioinformatics`, `dna`, `genomics`, `tensorflow`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 777 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 126 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 53 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C++ \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e specific \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2021-08-31 23:19:33 |\n|43|[**nroduit/Weasis**](https://github.com/nroduit/Weasis)\u003cbr\u003eWeasis is a DICOM viewer available as a desktop application or as a web-based application.\u003cbr\u003e`dicom`, `dicom-image`, `dicom-image-viewer`, `dicom-images`, `dicom-pr`, `dicom-rt`, `dicom-seg`, `dicom-viewer`, `dicom-web-viewer`, `dicomweb`, `ecg`, `export-dicom`, `medical`, `medical-imaging`, `multiplanar-reconstruction`, `viewer`, `volume-rendering`, `weasis`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 763 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 281 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 49 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Java \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e specific \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-06 18:42:54 |\n|44|[**baidu-research/NCRF**](https://github.com/baidu-research/NCRF)\u003cbr\u003eCancer metastasis detection with neural conditional random field (NCRF)\u003cbr\u003e`camelyon16`, `conditional-random-fields`, `deep-learning`, `pathology`, `whole-slide-imaging`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 749 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 184 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 37 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache-2.0 license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2018-06-17 18:22:34 |\n|45|[**AstraZeneca/chemicalx**](https://github.com/AstraZeneca/chemicalx)\u003cbr\u003eA PyTorch and TorchDrug based deep learning library for drug pair scoring. (KDD 2022)\u003cbr\u003e`biology`, `chemistry`, `deep-chemistry`, `deep-learning`, `drug`, `drug-discovery`, `drug-interaction`, `drug-pair`, `geometric-deep-learning`, `geometry`, `graph-neural-network`, `machine-learning`, `pharma`, `polypharmacy`, `pytorch`, `smiles`, `smiles-strings`, `torch`, `torchdrug`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 701 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 89 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-09-11 08:01:43 |\n|46|[**samtools/hts-specs**](https://github.com/samtools/hts-specs)\u003cbr\u003eSpecifications of SAM/BAM and related high-throughput sequencing file formats\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 627 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 173 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e TeX \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-06 06:50:26 |\n|47|[**samtools/bcftools**](https://github.com/samtools/bcftools)\u003cbr\u003eThis is the official development repository for BCFtools. See installation instructions and other documentation here \u003ca href=\"http://samtools.github.io/bcftools/howtos/install.html\" rel=\"nofollow\"\u003ehttp://samtools.github.io/bcftools/howtos/install.html\u003c/a\u003e\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 626 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 241 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-07 13:13:17 |\n|48|[**insilicomedicine/GENTRL**](https://github.com/insilicomedicine/GENTRL)\u003cbr\u003eGenerative Tensorial Reinforcement Learning (GENTRL) model\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 596 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 216 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2020-04-28 11:58:05 |\n|49|[**shenwei356/awesome**](https://github.com/shenwei356/awesome)\u003cbr\u003eAwesome resources on Bioinformatics, data science, machine learning, programming language (Python, Golang, R, Perl) and miscellaneous stuff.\u003cbr\u003e`awesome`, `data-science`, `git`, `golang`, `linux`, `perl`, `programing-language`, `python`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 593 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 163 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 35 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e  \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-09-25 02:09:01 |\n|50|[**chanzuckerberg/cellxgene**](https://github.com/chanzuckerberg/cellxgene)\u003cbr\u003eAn interactive explorer for single-cell transcriptomics data\u003cbr\u003e`dataviz`, `scientific`, `scrna-seq`, `transcriptomics`, `visualization`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 591 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 111 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 33 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e JavaScript \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-12-19 22:19:07 |\n|51|[**invesalius/invesalius3**](https://github.com/invesalius/invesalius3)\u003cbr\u003e3D medical imaging reconstruction software\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 584 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 277 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 37 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e GPL-2.0 license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2022-04-14 02:28:31 |\n|52|[**lh3/bioawk**](https://github.com/lh3/bioawk)\u003cbr\u003eBWK awk modified for biological data\u003cbr\u003e`bioinformatics`, `sequence-analysis`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 582 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 121 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2022-08-11 01:06:45 |\n|53|[**MolecularAI/aizynthfinder**](https://github.com/MolecularAI/aizynthfinder)\u003cbr\u003eA tool for retrosynthetic planning\u003cbr\u003e`astrazeneca`, `chemical-reactions`, `cheminformatics`, `monte-carlo-tree-search`, `neural-networks`, `reaction-informatics`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 548 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 125 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-03 13:34:33 |\n|54|[**owkin/PyDESeq2**](https://github.com/owkin/PyDESeq2)\u003cbr\u003eA Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.\u003cbr\u003e`bioinformatics`, `differential-expression`, `python`, `rna-seq`, `transcriptomics`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 533 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 58 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-06 01:43:52 |\n|55|[**broadinstitute/infercnv**](https://github.com/broadinstitute/infercnv)\u003cbr\u003eInferring CNV from Single-Cell RNA-Seq\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 520 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 159 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 42 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e R \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e specific \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2020-02-07 20:29:28 |\n|56|[**scverse/anndata**](https://github.com/scverse/anndata)\u003cbr\u003eAnnotated data.\u003cbr\u003e`anndata`, `bioinformatics`, `data-science`, `machine-learning`, `scanpy`, `scverse`, `transcriptomics`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 511 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 148 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e BSD 3-Clause \"New\" or \"Revised\" License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-07 16:03:50 |\n|57|[**soedinglab/hh-suite**](https://github.com/soedinglab/hh-suite)\u003cbr\u003eRemote protein homology detection suite.\u003cbr\u003e`alignment`, `bioinformatics`, `cpp`, `hh-suite`, `hhblits`, `hhpred`, `hhsearch`, `opensource`, `profile-profile-search`, `profile-search`, `protein-structure`, `sequence-search`, `simd`, `viterbi`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 509 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 128 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e GNU General Public License v3.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-08-13 08:44:05 |\n|58|[**chhylp123/hifiasm**](https://github.com/chhylp123/hifiasm)\u003cbr\u003eHifiasm: a haplotype-resolved assembler for accurate Hifi reads\u003cbr\u003e`bioinformatics`, `denovo-assembly`, `genomics`, `hifi-read`, `pacbio`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 490 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 84 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 28 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C++ \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-06 14:29:45 |\n|59|[**insitro/redun**](https://github.com/insitro/redun)\u003cbr\u003eYet another redundant workflow engine\u003cbr\u003e`aws`, `bioinformatics`, `data-engineering`, `data-science`, `docker`, `etl`, `gcp`, `ml`, `python`, `workflow-engine`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 489 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 40 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-06 18:52:56 |\n|60|[**biosustain/potion**](https://github.com/biosustain/potion)\u003cbr\u003eFlask-Potion is a RESTful API framework for Flask and SQLAlchemy, Peewee or MongoEngine\u003cbr\u003e`flask`, `flask-extensions`, `mongoengine`, `peewee`, `sqlalchemy`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 488 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 51 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2019-04-23 17:00:39 |\n|61|[**google-deepmind/alphamissense**](https://github.com/google-deepmind/alphamissense)\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 461 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 58 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 25 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache-2.0 license |\n|62|[**scverse/squidpy**](https://github.com/scverse/squidpy)\u003cbr\u003eSpatial Single Cell Analysis in Python\u003cbr\u003e`data-visualization`, `image-analysis`, `single-cell-genomics`, `single-cell-rna-seq`, `spatial-analysis`, `spatial-transcriptomics`, `squidpy`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 399 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 71 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e BSD 3-Clause \"New\" or \"Revised\" License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-08 21:22:47 |\n|63|[**lh3/minigraph**](https://github.com/lh3/minigraph)\u003cbr\u003eSequence-to-graph mapper and graph generator\u003cbr\u003e`bioinformatics`, `genome-graph`, `genomics`, `pan-genome`, `sequence-alignment`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 394 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 38 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-22 00:59:12 |\n|64|[**benevolentAI/guacamol**](https://github.com/benevolentAI/guacamol)\u003cbr\u003eBenchmarks for generative chemistry\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 383 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 82 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-02-11 08:59:38 |\n|65|[**calico/basenji**](https://github.com/calico/basenji)\u003cbr\u003eSequential regulatory activity predictions with deep convolutional neural networks.\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 373 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 119 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-28 20:08:23 |\n|66|[**ome/bioformats**](https://github.com/ome/bioformats)\u003cbr\u003eBio-Formats is a Java library for reading and writing data in life sciences image file formats. It is developed by the Open Microscopy Environment. Bio-Formats is released under the GNU General Public License (GPL); commercial licenses are available from Glencoe Software.\u003cbr\u003e`bio-formats`, `format-converter`, `format-reader`, `image`, `java`, `life-sciences-image`, `lightsheet`, `metadata`, `whole-slide-imaging`, `wsi`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 367 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 239 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Java \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e GNU General Public License v2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-07 19:34:33 |\n|67|[**MolecularAI/GraphINVENT**](https://github.com/MolecularAI/GraphINVENT)\u003cbr\u003eGraph neural networks for molecular design.\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 356 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 74 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-03-11 11:55:32 |\n|67|[**chembl/chembl_webresource_client**](https://github.com/chembl/chembl_webresource_client)\u003cbr\u003eOfficial Python client for accessing ChEMBL API\u003cbr\u003e`chembl`, `cheminformatics`, `chemistry`, `chemoinformatics`, `python`, `rest`, `rest-client`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 356 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 95 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-02-26 15:44:57 |\n|68|[**shenwei356/taxonkit**](https://github.com/shenwei356/taxonkit)\u003cbr\u003eA Practical and Efficient NCBI Taxonomy Toolkit, also supports creating NCBI-style taxdump files for custom taxonomies like GTDB/ICTV\u003cbr\u003e`bioinformatics`, `cross-platform`, `lca`, `lineage`, `taxdump`, `taxid`, `taxonkit`, `taxonomy`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 342 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 29 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 10 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Go \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-04-25 17:15:34 |\n|69|[**deepchem/DeepLearningLifeSciences**](https://github.com/deepchem/DeepLearningLifeSciences)\u003cbr\u003eExample code from the book \"Deep Learning for the Life Sciences\"\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 338 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 150 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Jupyter Notebook \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2021-09-17 05:10:37 |\n|70|[**MolecularAI/Reinvent**](https://github.com/MolecularAI/Reinvent)\u003cbr\u003e`astrazeneca`, `cheminformatics`, `denovo-design`, `neural-networks`, `reinforcement-learning`, `transfer-learning`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 332 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 108 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-10-19 05:26:16 |\n|71|[**aqlaboratory/rgn**](https://github.com/aqlaboratory/rgn)\u003cbr\u003eRecurrent Geometric Networks for end-to-end differentiable learning of protein structure\u003cbr\u003e`deep-learning`, `deep-neural-networks`, `protein-structure`, `protein-structure-prediction`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 326 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 89 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2019-08-01 14:17:59 |\n|72|[**tencent-ailab/grover**](https://github.com/tencent-ailab/grover)\u003cbr\u003eThis is a Pytorch implementation of the paper: Self-Supervised Graph Transformer on Large-Scale Molecular Data\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 313 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 68 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 7 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e specific \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2021-01-18 09:06:32 |\n|73|[**lh3/miniprot**](https://github.com/lh3/miniprot)\u003cbr\u003eAlign proteins to genomes with splicing and frameshift\u003cbr\u003e`bioinformatics`, `sequence-alignment`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 305 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 16 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-04-12 21:01:25 |\n|74|[**Roche/pyreadstat**](https://github.com/Roche/pyreadstat)\u003cbr\u003ePython package to read sas, spss and stata files into pandas data frames. It is a wrapper for the C library readstat.\u003cbr\u003e`conversion`, `pandas-dataframe`, `python`, `readstat`, `sas7bdat`, `spss`, `stata-files`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 303 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 55 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-04 09:55:07 |\n|75|[**lh3/miniasm**](https://github.com/lh3/miniasm)\u003cbr\u003eUltrafast de novo assembly for long noisy reads (though having no consensus step)\u003cbr\u003e`bioinformatics`, `denovo-assembly`, `genomics`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 293 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 68 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e TeX \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-12-13 01:35:58 |\n|76|[**chanzuckerberg/MedMentions**](https://github.com/chanzuckerberg/MedMentions)\u003cbr\u003eA corpus of Biomedical papers annotated with mentions of UMLS entities.\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 291 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 31 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 25 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e  |\n|77|[**AstraZeneca/rexmex**](https://github.com/AstraZeneca/rexmex)\u003cbr\u003eA general purpose recommender metrics library for fair evaluation.\u003cbr\u003e`coverage`, `deep-learning`, `evaluation`, `machine-learning`, `metric`, `metrics`, `mrr`, `personalization`, `precision`, `rank`, `ranking`, `recall`, `recommender`, `recommender-system`, `recsys`, `rsquared`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 275 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 25 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-08-22 09:22:20 |\n|78|[**samtools/htsjdk**](https://github.com/samtools/htsjdk)\u003cbr\u003eA Java API for high-throughput sequencing data (HTS) formats.\u003cbr\u003e`bam`, `cram`, `dna`, `fasta`, `genomics`, `java`, `java-api`, `ngs`, `sam`, `sequencing`, `vcf`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 274 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 244 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Java \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-04 18:40:43 |\n|79|[**shenwei356/brename**](https://github.com/shenwei356/brename)\u003cbr\u003eA practical cross-platform command-line tool for safely batch renaming files/directories via regular expression\u003cbr\u003e`batch`, `batch-rename`, `batch-rename-files`, `batch-renamer`, `go`, `golang`, `rename`, `safe`, `windows`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 254 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 21 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 6 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Go \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-04-14 08:22:45 |\n|80|[**lh3/wgsim**](https://github.com/lh3/wgsim)\u003cbr\u003eReads simulator\u003cbr\u003e`bioinformatics`, `genomics`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 252 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 90 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2021-09-03 14:58:22 |\n|81|[**Acellera/htmd**](https://github.com/Acellera/htmd)\u003cbr\u003eHTMD: Programming Environment for Molecular Discovery\u003cbr\u003e`automate`, `drug-discovery`, `htmd`, `molecular-simulations`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 250 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 58 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Rich Text Format \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-07 15:24:26 |\n|82|[**DeepGraphLearning/GearNet**](https://github.com/DeepGraphLearning/GearNet)\u003cbr\u003eGearNet and Geometric Pretraining Methods for Protein Structure Representation Learning, ICLR'2023 (https://arxiv.org/abs/2203.06125)\u003cbr\u003e`graph-neural-networks`, `pre-training`, `protein-representation-learning`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 249 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 26 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 10 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license |\n|83|[**MolecularAI/REINVENT4**](https://github.com/MolecularAI/REINVENT4)\u003cbr\u003eAI molecular design tool for de novo design, scaffold hopping, R-group replacement, linker design and molecule optimization.\u003cbr\u003e`ai`, `astrazeneca`, `cheminformatics`, `chemistry`, `deep-learning`, `denovo-design`, `drug-design`, `drug-discovery`, `generative-ai`, `ml`, `molecule-generation`, `neural-networks`, `reinforcement-learning`, `transfer-learning`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 247 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 57 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-04-27 11:00:08 |\n|84|[**rdkit/rdkit-tutorials**](https://github.com/rdkit/rdkit-tutorials)\u003cbr\u003eTutorials to learn how to work with the RDKit\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 239 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 71 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Jupyter Notebook \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-03-19 13:36:55 |\n|85|[**insightsengineering/rtables**](https://github.com/insightsengineering/rtables)\u003cbr\u003eReporting tables with R\u003cbr\u003e`pharmaceuticals`, `r`, `tables`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 213 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 49 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e R \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-07 21:27:39 |\n|86|[**Bayer-Group/cloudformation-template-generator**](https://github.com/Bayer-Group/cloudformation-template-generator)\u003cbr\u003eA type-safe Scala DSL for generating CloudFormation templates\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 211 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 71 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Scala \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e BSD 3-Clause \"New\" or \"Revised\" License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2022-07-29 11:32:04 |\n|87|[**pharmaverse/admiral**](https://github.com/pharmaverse/admiral)\u003cbr\u003eADaM in R Asset Library\u003cbr\u003e`cdisc`, `clinical-trials`, `open-source`, `r`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 207 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 53 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e R \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-07 18:23:44 |\n|87|[**OpenGene/awesome-bio-datasets**](https://github.com/OpenGene/awesome-bio-datasets)\u003cbr\u003eawesome-bio-datasets\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 207 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 42 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2017-10-28 12:32:15 |\n|88|[**OpenGene/AfterQC**](https://github.com/OpenGene/AfterQC)\u003cbr\u003eAutomatic Filtering, Trimming, Error Removing and Quality Control for fastq data\u003cbr\u003e`adapter-trimming`, `bioinformatics`, `error`, `fastq`, `filtering`, `ngs`, `overlap`, `qc`, `quality-control`, `sequencing`, `trimming`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 203 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 50 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2020-05-14 07:15:54 |\n|89|[**Bayer-Group/etcd-aws-cluster**](https://github.com/Bayer-Group/etcd-aws-cluster)\u003cbr\u003eA container to assist in managing a etcd2 cluster from an Amazon auto scaling group\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 202 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 102 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Shell \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e BSD 3-Clause \"New\" or \"Revised\" License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2017-02-01 01:09:05 |\n|89|[**modernatx/seqlike**](https://github.com/modernatx/seqlike)\u003cbr\u003eUnified biological sequence manipulation in Python\u003cbr\u003e`biological-sequences`, `biopython`, `machine-learning`, `sequence`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 202 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 18 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-02-16 13:13:05 |\n|89|[**scverse/scirpy**](https://github.com/scverse/scirpy)\u003cbr\u003eA scanpy extension to analyse single-cell TCR and BCR data.\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 202 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 31 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e BSD 3-Clause \"New\" or \"Revised\" License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-06 06:21:35 |\n|90|[**lh3/gfatools**](https://github.com/lh3/gfatools)\u003cbr\u003eTools for manipulating sequence graphs in the GFA and rGFA formats\u003cbr\u003e`bioinformatics`, `genome-graph`, `genomics`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 201 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 18 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-02-20 15:29:14 |\n|90|[**scverse/muon**](https://github.com/scverse/muon)\u003cbr\u003emuon is a multimodal omics Python framework\u003cbr\u003e`anndata`, `cite-seq`, `mudata`, `multi-omics`, `multimodal-data`, `multimodal-omics-analysis`, `muon`, `scanpy`, `scatac-seq`, `scrna-seq`, `scverse`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 201 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 28 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e BSD 3-Clause \"New\" or \"Revised\" License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-30 21:21:35 |\n|91|[**aws-samples/aws-batch-genomics**](https://github.com/aws-samples/aws-batch-genomics)\u003cbr\u003eSoftware sets up and runs an genome sequencing analysis workflow using AWS Batch and AWS Step Functions.\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 199 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 75 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 39 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache-2.0 license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2018-11-29 18:40:42 |\n|92|[**rdkit/mmpdb**](https://github.com/rdkit/mmpdb)\u003cbr\u003eA package to identify matched molecular pairs and use them to predict property changes.\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 195 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 53 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-04-30 10:55:30 |\n|93|[**Acellera/moleculekit**](https://github.com/Acellera/moleculekit)\u003cbr\u003eMoleculeKit: Your favorite molecule manipulation kit\u003cbr\u003e`drug-discovery`, `machine-learning`, `molecular-modeling`, `molecular-simulation`, `molecule`, `proteins`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 193 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 35 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-04 13:53:30 |\n|94|[**bioinform/somaticseq**](https://github.com/bioinform/somaticseq)\u003cbr\u003eAn ensemble approach to accurately detect somatic mutations using SomaticSeq\u003cbr\u003e`cancer-genomics`, `somatic-variants`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 189 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 53 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e BSD 2-Clause \"Simplified\" License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-30 07:55:34 |\n|95|[**MolecularAI/Chemformer**](https://github.com/MolecularAI/Chemformer)\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 188 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 34 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-29 14:43:33 |\n|96|[**owkin/FLamby**](https://github.com/owkin/FLamby)\u003cbr\u003eCross-silo Federated Learning playground in Python. Discover 7 real-world federated datasets to test your new FL strategies and try to beat the leaderboard.\u003cbr\u003e`dataset`, `deep-learning`, `differential-privacy`, `federated-learning`, `healthcare`, `machine-learning`, `python`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 187 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 22 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-03 12:18:27 |\n|96|[**ome/openmicroscopy**](https://github.com/ome/openmicroscopy)\u003cbr\u003eOME (Open Microscopy Environment) develops open-source software and data format standards for the storage and manipulation of biological light microscopy data. A joint project between universities, research establishments and industry in Europe and the USA, OME has over 20 active researchers with strong links to the microscopy community. Funded …\u003cbr\u003e`database`, `image`, `java`, `omero`, `python`, `server`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 187 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 100 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Java \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e GNU General Public License v2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-08 00:39:30 |\n|97|[**AstraZeneca-NGS/VarDict**](https://github.com/AstraZeneca-NGS/VarDict)\u003cbr\u003eVarDict\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 186 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 60 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Perl \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-01-05 14:06:13 |\n|97|[**scverse/spatialdata**](https://github.com/scverse/spatialdata)\u003cbr\u003eAn open and interoperable data framework for spatial omics data\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 186 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 34 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e BSD 3-Clause \"New\" or \"Revised\" License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-08 00:23:48 |\n|98|[**haowenz/chromap**](https://github.com/haowenz/chromap)\u003cbr\u003eFast alignment and preprocessing of chromatin profiles\u003cbr\u003e`bioinformatics`, `chromatin-profiles`, `genomics`, `sequence-analysis`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 184 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 18 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 7 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C++ \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-02-06 15:29:20 |\n|99|[**chao1224/MoleculeSTM**](https://github.com/chao1224/MoleculeSTM)\u003cbr\u003eMulti-modal Molecule Structure-text Model for Text-based Editing and Retrieval, Nat Mach Intell 2023 (https://www.nature.com/articles/s42256-023-00759-6)\u003cbr\u003e`clip`, `computation-chemistry`, `drug-discovery`, `editing`, `foundation-model`, `molecule-editing`, `moleculeclip`, `moleculestm`, `pretraining`, `retrieval`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 182 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 17 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 4 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e specific \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-04-19 05:25:24 |\n|100|[**openpharma/visR**](https://github.com/openpharma/visR)\u003cbr\u003eA package to wrap functionality for plots, tables and diagrams adhering to graphical principles.\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 179 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 32 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e R \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-04 13:48:59 |\n|100|[**chembl/ChEMBL_Structure_Pipeline**](https://github.com/chembl/ChEMBL_Structure_Pipeline)\u003cbr\u003eChEMBL database structure pipelines\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 179 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 38 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-10-25 15:20:47 |\n|101|[**AstraZeneca/awesome-drug-discovery-knowledge-graphs**](https://github.com/AstraZeneca/awesome-drug-discovery-knowledge-graphs)\u003cbr\u003eA collection of research papers, datasets and software related to knowledge graphs for drug discovery. Accompanies the paper \"A review of biomedical datasets relating to drug discovery: a knowledge graph perspective\" (Briefings in Bioinformatics, 2022)\u003cbr\u003e`awesome-list`, `drug-discovery`, `drug-discovery-knowledge-graph`, `knowledge-graph`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 177 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 19 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-09-10 16:33:40 |\n|102|[**lh3/biofast**](https://github.com/lh3/biofast)\u003cbr\u003eBenchmarking programming languages/implementations for common tasks in Bioinformatics\u003cbr\u003e`bioinformatics`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 175 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 26 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2021-12-09 14:10:44 |\n|103|[**shenwei356/kmcp**](https://github.com/shenwei356/kmcp)\u003cbr\u003eAccurate metagenomic profiling \u0026\u0026 Fast large-scale sequence/genome searching\u003cbr\u003e`bigsi`, `cobs`, `fracminhash`, `kmer`, `metagenomics`, `scaled-minhash`, `searching`, `sketch`, `sketching`, `syncmers`, `taxonomic-classification`, `taxonomic-profiling`, `virome`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 173 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 13 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 6 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Go \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-09-22 04:09:54 |\n|104|[**rgcgithub/regenie**](https://github.com/rgcgithub/regenie)\u003cbr\u003eregenie is a C++ program for whole genome regression modelling of large genome-wide association studies.\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 172 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 49 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C++ \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-04-03 13:52:31 |\n|105|[**soedinglab/metaeuk**](https://github.com/soedinglab/metaeuk)\u003cbr\u003eMetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics\u003cbr\u003e`bioinformatics`, `eukaryotes`, `gene-discovery`, `gene-prediction`, `metagenomics`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 171 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 24 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e GNU General Public License v3.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-30 09:04:06 |\n|106|[**recursionpharma/gflownet**](https://github.com/recursionpharma/gflownet)\u003cbr\u003eGFlowNet library specialized for graph \u0026amp; molecular data\u003cbr\u003e`deep-learning`, `gflownet`, `graph-neural-network`, `pytorch`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 168 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 34 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-06 13:29:06 |\n|106|[**scverse/scanpy-tutorials**](https://github.com/scverse/scanpy-tutorials)\u003cbr\u003eScanpy Tutorials.\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 168 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 113 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Jupyter Notebook \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-03 19:42:01 |\n|107|[**bioinform/neusomatic**](https://github.com/bioinform/neusomatic)\u003cbr\u003eNeuSomatic: Deep convolutional neural networks for accurate somatic mutation detection\u003cbr\u003e`convolutional-neural-networks`, `deep-learning`, `genomics`, `somatic-variants`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 167 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 50 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2021-12-23 10:41:50 |\n|108|[**lh3/readfq**](https://github.com/lh3/readfq)\u003cbr\u003eFast multi-line FASTA/Q reader in several programming languages\u003cbr\u003e`bioinformatics`, `sequence-analysis`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 166 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 60 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2021-06-06 07:27:15 |\n|109|[**insightsengineering/teal**](https://github.com/insightsengineering/teal)\u003cbr\u003eExploratory Web Apps for Analyzing Clinical Trial Data\u003cbr\u003e`clinical-trials`, `nest`, `r`, `shiny`, `webapp`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 164 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 29 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e R \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-07 12:49:26 |\n|110|[**lh3/cgranges**](https://github.com/lh3/cgranges)\u003cbr\u003eA C/C++ library for fast interval overlap queries (with a \"bedtools coverage\" example)\u003cbr\u003e`algorithm`, `bioinformatics`, `genomics`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 161 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 18 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-28 21:47:37 |\n|110|[**lh3/kmer-cnt**](https://github.com/lh3/kmer-cnt)\u003cbr\u003eCode examples of fast and simple k-mer counters for tutorial purposes\u003cbr\u003e`bioinformatics`, `genomics`, `k-mer-counting`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 161 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 13 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C++ \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2020-03-10 16:24:06 |\n|111|[**greenelab/tybalt**](https://github.com/greenelab/tybalt)\u003cbr\u003eTraining and evaluating a variational autoencoder for pan-cancer gene expression data\u003cbr\u003e`analysis`, `autoencoder`, `cancer`, `cancer-genomics`, `deep-learning`, `gene-expression`, `script`, `tool`, `unsupervised-learning`, `variational-autoencoder`, `variational-autoencoders`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 159 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 62 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 10 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e HTML \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e BSD-3-Clause license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2017-11-13 13:38:42 |\n|112|[**aqlaboratory/genie**](https://github.com/aqlaboratory/genie)\u003cbr\u003eDe Novo Protein Design by Equivariantly Diffusing Oriented Residue Clouds\u003cbr\u003e`diffusion-models`, `protein-design`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 154 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 18 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-04-21 13:48:25 |\n|113|[**DeepGraphLearning/ConfGF**](https://github.com/DeepGraphLearning/ConfGF)\u003cbr\u003eImplementation of Learning Gradient Fields for Molecular Conformation Generation (ICML 2021).\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 153 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 34 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 10 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license |\n|114|[**benevolentAI/DeeplyTough**](https://github.com/benevolentAI/DeeplyTough)\u003cbr\u003eDeeplyTough: Learning Structural Comparison of Protein Binding Sites\u003cbr\u003e`3d-models`, `deep-learning`, `drug-discovery`, `metric-learning`, `protein-structure`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 151 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 39 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-04-07 09:33:44 |\n|115|[**chao1224/GraphMVP**](https://github.com/chao1224/GraphMVP)\u003cbr\u003ePre-training Molecular Graph Representation with 3D Geometry, ICLR'22 (https://openreview.net/forum?id=xQUe1pOKPam)\u003cbr\u003e`contrastive-learning`, `generative-model`, `geometry`, `graph`, `molecule`, `pretraining`, `self-supervised`, `self-supervised-learning`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 150 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 20 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 5 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2022-09-20 14:29:48 |\n|116|[**OpenGene/MutScan**](https://github.com/OpenGene/MutScan)\u003cbr\u003eDetect and visualize target mutations by scanning FastQ files directly\u003cbr\u003e`bioinformatics`, `cancer`, `detection`, `fastq`, `mutation`, `ngs`, `somatic`, `validation`, `variant`, `visualization`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 146 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 38 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2022-02-10 01:52:44 |\n|117|[**MolecularAI/ReinventCommunity**](https://github.com/MolecularAI/ReinventCommunity)\u003cbr\u003e`astrazeneca`, `cheminformatics`, `denovo-design`, `jupyter-notebook`, `neural-networks`, `reinforcement-learning`, `transfer-learning`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 145 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 57 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Jupyter Notebook \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2022-04-22 16:44:35 |\n|117|[**lh3/psmc**](https://github.com/lh3/psmc)\u003cbr\u003eImplementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model\u003cbr\u003e`bioinformatics`, `genomics`, `population-genetics`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 145 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 60 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2022-11-21 04:39:31 |\n|117|[**tencent-ailab/DrugOOD**](https://github.com/tencent-ailab/DrugOOD)\u003cbr\u003eOOD Dataset Curator and Benchmark for AI-aided Drug Discovery\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 145 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 19 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 6 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e specific |\n|118|[**ome/ome-zarr-py**](https://github.com/ome/ome-zarr-py)\u003cbr\u003eImplementation of next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.\u003cbr\u003e`ngff`, `ome`, `ome-zarr`, `zarr`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 143 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 51 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-06 12:51:57 |\n|119|[**Novartis/tidymodules**](https://github.com/Novartis/tidymodules)\u003cbr\u003eAn Object-Oriented approach to Shiny modules\u003cbr\u003e`communication`, `inheritance`, `oop`, `r`, `shiny`, `shiny-modules`, `tidy-operators`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 141 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 11 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e R \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-02-23 15:04:31 |\n|120|[**aws-samples/aws-genomics-workflows**](https://github.com/aws-samples/aws-genomics-workflows)\u003cbr\u003eGenomics Workflows on AWS\u003cbr\u003e`aws`, `batch`, `genomics`, `step-functions`, `workflows`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 140 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 106 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 19 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Shell \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT-0 license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2022-03-30 21:38:09 |\n|121|[**MolecularAI/deep-molecular-optimization**](https://github.com/MolecularAI/deep-molecular-optimization)\u003cbr\u003eMolecular optimization by capturing chemist’s intuition using the Seq2Seq with attention and the Transformer\u003cbr\u003e`molecular-optimization`, `multi-property-optimization`, `seq2seq`, `transformer`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 139 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 36 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-03-16 07:05:06 |\n|122|[**AstraZeneca/SubTab**](https://github.com/AstraZeneca/SubTab)\u003cbr\u003eThe official implementation of the paper, \"SubTab: Subsetting Features of Tabular Data for Self-Supervised Representation Learning\"\u003cbr\u003e`contrastive-learning`, `multi-view-learning`, `representation-learning`, `self-supervised-learning`, `tabular-data`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 138 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 20 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2022-07-01 09:03:38 |\n|122|[**johnsonandjohnson/Bodiless-JS**](https://github.com/johnsonandjohnson/Bodiless-JS)\u003cbr\u003eFramework for building editable websites on the JAMStack\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 138 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 59 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e TypeScript \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-01-24 03:00:32 |\n|123|[**Benson-Genomics-Lab/TRF**](https://github.com/Benson-Genomics-Lab/TRF)\u003cbr\u003eTandem Repeats Finder: a program to analyze DNA sequences\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 137 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 24 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e GNU Affero General Public License v3.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-01-16 20:44:26 |\n|124|[**lh3/pangene**](https://github.com/lh3/pangene)\u003cbr\u003eConstructing a pangenome gene graph\u003cbr\u003e`bioinformatics`, `pangenome`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 136 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 7 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-29 00:13:01 |\n|125|[**owkin/HistoSSLscaling**](https://github.com/owkin/HistoSSLscaling)\u003cbr\u003eCode associated to the publication: Scaling self-supervised learning for histopathology with masked image modeling, A. Filiot et al., MedRxiv (2023). We publicly release Phikon 🚀\u003cbr\u003e`computational-pathology`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 135 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 11 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Jupyter Notebook \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-01-29 22:35:32 |\n|126|[**AstraZeneca/awesome-shapley-value**](https://github.com/AstraZeneca/awesome-shapley-value)\u003cbr\u003eReading list for \"The Shapley Value in Machine Learning\" (JCAI 2022)\u003cbr\u003e`artificial-intelligence`, `data-science`, `deep-learning`, `explainability`, `explainable`, `explainable-ai`, `explainable-artificial-intelligence`, `explainable-ml`, `lime`, `machine-learning`, `owen-value`, `shap`, `shapley`, `shapley-additive-explanations`, `shapley-decomposition`, `shapley-q-value`, `shapley-value`, `xai`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 134 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 10 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2022-08-08 08:53:10 |\n|127|[**lh3/bedtk**](https://github.com/lh3/bedtk)\u003cbr\u003eA simple toolset for BED files (warning: CLI may change before bedtk becomes stable)\u003cbr\u003e`bioinformatics`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 132 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 15 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-28 21:48:28 |\n|128|[**Bioconductor/Contributions**](https://github.com/Bioconductor/Contributions)\u003cbr\u003eContribute Packages to Bioconductor\u003cbr\u003e`bioconductor`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 131 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 33 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-09-12 18:32:10 |\n|129|[**Merck/BioPhi**](https://github.com/Merck/BioPhi)\u003cbr\u003eBioPhi is an open-source antibody design platform. It features methods for automated antibody humanization (Sapiens), humanness evaluation (OASis) and an interface for computer-assisted antibody sequence design.\u003cbr\u003e`antibody`, `humanization`, `humanness`, `oasis`, `sapiens`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 129 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 44 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-03 07:17:18 |\n|129|[**soedinglab/plass**](https://github.com/soedinglab/plass)\u003cbr\u003esensitive and precise assembly of short sequencing reads\u003cbr\u003e`bioinformatics`, `metagenomics`, `metatranscriptomics`, `opensource`, `proteins`, `proteomics`, `sequence-assembler`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 129 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 14 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e GNU General Public License v3.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-04-16 20:44:12 |\n|130|[**benevolentAI/guacamol_baselines**](https://github.com/benevolentAI/guacamol_baselines)\u003cbr\u003eBaselines models for GuacaMol benchmarks\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 128 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 33 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-02-16 09:40:42 |\n|131|[**AstraZeneca-NGS/VarDictJava**](https://github.com/AstraZeneca-NGS/VarDictJava)\u003cbr\u003eVarDict Java port\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 127 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 52 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Java \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-01-05 14:03:51 |\n|132|[**lh3/ksw2**](https://github.com/lh3/ksw2)\u003cbr\u003eGlobal alignment and alignment extension\u003cbr\u003e`bioinformatics`, `sequence-alignment`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 124 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 24 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-06-27 17:21:12 |\n|132|[**chao1224/ChatDrug**](https://github.com/chao1224/ChatDrug)\u003cbr\u003eLLM for Drug Editing, ICLR 2024\u003cbr\u003e`chatgpt`, `chatgpt3`, `conversation`, `domain-feedback`, `drug`, `drug-discovery`, `drug-editing`, `editing`, `llm`, `molecule`, `motif`, `peptide`, `protein`, `retrieval`, `secondary-structure`, `small-molecule`, `structure`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 124 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 8 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 3 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-28 19:44:44 |\n|133|[**rdkit/rdkit-js**](https://github.com/rdkit/rdkit-js)\u003cbr\u003eA powerful cheminformatics and molecule rendering toolbelt for JavaScript, powered by RDKit .\u003cbr\u003e`cheminformatics`, `drug-discovery`, `javascript`, `molecule`, `molecule-viewer`, `molecule-visualization`, `node-js`, `npm`, `rdkit`, `react`, `wasm`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 123 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 35 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Dockerfile \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e BSD 3-Clause \"New\" or \"Revised\" License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-06-01 09:54:52 |\n|133|[**blazerye/DrugAssist**](https://github.com/blazerye/DrugAssist)\u003cbr\u003eDrugAssist: A Large Language Model for Molecule Optimization\u003cbr\u003e`ai-for-science`, `drug-discovery`, `instruction-datasets`, `instruction-tuning`, `large-language-models`, `molecule-generation`, `molecule-optimization`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 123 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 10 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 3 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Python |\n|134|[**bigdatagenomics/mango**](https://github.com/bigdatagenomics/mango)\u003cbr\u003eA scalable genome browser. Apache 2 licensed.\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 122 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 30 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Scala \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Apache License 2.0 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2022-12-02 22:21:57 |\n|135|[**OpenGene/repaq**](https://github.com/OpenGene/repaq)\u003cbr\u003eA fast lossless FASTQ compressor with ultra-high compression ratio\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 120 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 20 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e C \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e MIT License \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2023-09-22 02:48:34 |\n|136|[**Bioconductor/BiocStickers**](https://github.com/Bioconductor/BiocStickers)\u003cbr\u003eStickers for some Bioconductor packages - feel free to contribute and/or modify.\u003cbr\u003e`bioconductor`, `stickers`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 119 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 86 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e R \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e Other \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2024-05-10 05:58:21 |\n|136|[**greenelab/pancancer**](https://github.com/greenelab/pancancer)\u003cbr\u003eBuilding classifiers using cancer transcriptomes across 33 different cancer-types\u003cbr\u003e`analysis`, `cancer`, `classifier`, `gene-expression`, `machine-learning`, `methodology`, `pancancer`, `tcga`, `tool`, `transcriptome`\u003cbr\u003e\u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'\u003e 119 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'\u003e 58 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/watchers.png'\u003e 10 \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/code.png'\u003e Jupyter Notebook \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/license.png'\u003e BSD-3-Clause license \u003cimg src='https://github.com/HubTou/topgh/blob/main/icons/last.png'\u003e 2018-03-01 15:38:3","projects_url":"https://awesome.ecosyste.ms/api/v1/lists/servierhub%2Ftop-life-sciences/projects"}