Projects in Awesome Lists tagged with epigenetics
A curated list of projects in awesome lists tagged with epigenetics .
https://github.com/jts/nanopolish
Signal-level algorithms for MinION data
bioinformatics c-plus-plus epigenetics genome-assembly methylation science
Last synced: 06 May 2025
https://github.com/r3fang/SnapATAC
Analysis Pipeline for Single Cell ATAC-seq
bioinformatics-pipeline epigenetics machine-learning-algorithms sequencing single-cell-analysis single-cell-atac-seq
Last synced: 10 May 2025
https://github.com/nanoporetech/tombo
Tombo is a suite of tools primarily for the identification of modified nucleotides from raw nanopore sequencing data.
Last synced: 05 Apr 2025
https://github.com/nanoporetech/megalodon
Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by anchoring the information rich basecalling neural network output to a reference genome/transriptome.
basecalling epigenetics guppy variant-calling
Last synced: 29 Mar 2025
https://github.com/cangermueller/deepcpg
Deep neural networks for predicting CpG methylation
deep-neural-networks deeplearning epigenetics methylation single-cell
Last synced: 09 Apr 2025
https://github.com/bioinfomaticsCSU/deepsignal
Detecting methylation using signal-level features from Nanopore sequencing reads
bioinformatics epigenetics methylation nanopore-sequencing tensorflow
Last synced: 06 May 2025
https://github.com/epigen/mrbiomics
MrBiomics: Modules & Recipes augment Bioinformatics for Multi-Omics Analyses
automation bioinformatics biomedical data-science epigenetics framework genetics genomics modules next-generation-sequencing python r recipes research science snakemake workflows
Last synced: 15 Apr 2025
https://github.com/caleblareau/bap
Bead-based single-cell atac processing
bead-doublets epigenetics epigenomics genomics scatac single-cell
Last synced: 10 May 2025
https://github.com/neurogenomics/epicompare
Comparison, benchmarking & QC of epigenetic datasets
benchmark benchmarking bioconductor bioconductor-package comparison epigenetics genetics html interactive-reporting r-package
Last synced: 03 Apr 2025
https://github.com/supermaxiste/arpeggio
A SnakeMake workflow to analyse whole genome bisulfite sequencing data from allopolyploids.
allopolyploid automation bisulfite-sequencing dna-methylation epigenetics plants reproducibility snakemake whole-genome-sequencing workflow
Last synced: 17 Mar 2025
https://github.com/y9c/m6a-camseq
🧪 m6A-CAM-seq
bioinformatics epigenetics rna
Last synced: 06 May 2025
https://github.com/j-andrews7/eclipse
An R package for classifying, comparing, and investigating sub-region structural changes of (super) enhancers (or other large domains).
bioconductor chip-seq classification cutandrun epigenetics regulation super-enhancers
Last synced: 17 Mar 2025
https://github.com/andrewdavidsmith/transferase
The transferase system for retrieving methylome data from methbase
bisulfite bisulfite-sequencing dna-methylation epigenetics epigenomics methyl-seq methylation methylation-analysis methylome wgbs
Last synced: 06 Apr 2025
https://github.com/deib-geco/combsafe
Combinatorial and Semantic Analysis of Functional Elements
big-data-analysis chromatin-state epigenetics semantic-annotation
Last synced: 18 Mar 2025
https://github.com/rushiljalal/quitwise
An android app made using React Native for Appathon 2024
epigenetics expo react-native typescript
Last synced: 22 Mar 2025
https://github.com/fhdsl/anvil_book_epigenetics_intro
An introductory activity for epigenetics, or the idea of "nature versus nurture" in genetics. Learners use the UCSC Genome Browser.
anvil course epigenetics human-genomes module ucsc-browser
Last synced: 13 Apr 2025
https://github.com/sivkri/schizosaccharomyces-pombe-chip-seq-analysis
After getting the bed file from the Peak calling, we can annotate and create all downstream analysis of two sets of data
chip-seq chip-seq-analysis chip-seq-data chip-seq-pipeline epigenetics epigenetics-data functional-genomics regulatory-elements schizosaccharomyces-pombe transcription-factors
Last synced: 22 Mar 2025
https://github.com/andrewdavidsmith/mxe
Methylome transfer engine (mxe)
bisulfite bisulfite-sequencing dna-methylation epigenetics epigenomics methyl-seq methylation methylation-analysis methylome wgbs
Last synced: 29 Nov 2024
https://github.com/lcwong0928/hotspot-prediction
A machine learning tool that uses DNA sequence and epigenetic data to enhance recombination hotspot predictions.
epigenetics machine-learning recombination-hotspot-prediction
Last synced: 27 Mar 2025
