Projects in Awesome Lists tagged with cite-seq
A curated list of projects in awesome lists tagged with cite-seq .
https://github.com/scverse/scvi-tools
Deep probabilistic analysis of single-cell and spatial omics data
cite-seq deep-generative-model deep-learning human-cell-atlas scrna-seq scverse single-cell-genomics single-cell-rna-seq variational-autoencoder variational-bayes
Last synced: 14 Dec 2025
https://github.com/scverse/muon
muon is a multimodal omics Python framework
anndata cite-seq mudata multi-omics multimodal-data multimodal-omics-analysis muon scanpy scatac-seq scrna-seq scverse
Last synced: 07 Jul 2025
https://github.com/sanderlab/scPerturb
scPerturb: A resource and a python/R tool for single-cell perturbation data
cite-seq database perturbation python r scatac-seq science scrna-seq single-cell statistics
Last synced: 09 May 2026
https://github.com/kanaverse/kana
Single cell analysis in the browser
bioinformatics cite-seq exploratory-data-analysis interactive-analysis interactive-visualizations rna-seq single-cell webassembly
Last synced: 07 May 2025
https://github.com/sanderlab/scperturb
scPerturb: A resource and a python/R tool for single-cell perturbation data
cite-seq database perturbation python r scatac-seq science scrna-seq single-cell statistics
Last synced: 09 Apr 2025
https://github.com/Novartis/scar
scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics
cite-seq crispr-screen denoising-algorithm generative-model machine-learning probabilistic-graphical-models pytorch single-cell-rna-seq variational-autoencoder
Last synced: 28 Sep 2025
https://github.com/novartis/scar
scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics
cite-seq crispr-screen denoising-algorithm generative-model machine-learning probabilistic-graphical-models pytorch single-cell-rna-seq variational-autoencoder
Last synced: 21 Jul 2025
https://github.com/epigen/scrnaseq_processing_seurat
A Snakemake workflow and MrBiomics module for processing and visualizing (multimodal) sc/snRNA-seq data generated with 10X Genomics Kits or in the MTX matrix file format powered by the R package Seurat.
10xgenomics bioinformatics biomedical-data-science cite-seq sccrispr-seq scrna-seq single-cell snakemake snrna-seq visualization workflow
Last synced: 15 Apr 2025
https://github.com/vjcitn/scvir
experimental interface between R and scvi-tools
Last synced: 28 Apr 2025
https://github.com/pinellolab/simstpy
A framework for simulation of spatially-resolved omics data using python
atac-seq cite-seq cut-tag-seq multi-omics rna-seq simulation spatial
Last synced: 25 Feb 2026
https://github.com/vjcitn/biocpyinterop
Material for Bioconductor 2023 workshop on interoperation with python
basilisk bioconductor cite-seq genetics hail reticulate scvi-tools single-cell-omics spark
Last synced: 07 May 2026