Single-cell epigenomics analysis tools
☆326Sep 12, 2026Updated 3 weeks ago
Alternatives and similar repositories for SnapATAC2
Users that are interested in SnapATAC2 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Analysis Pipeline for Single Cell ATAC-seq☆321Apr 27, 2023Updated 3 years ago
- muon is a multimodal omics Python framework☆279Updated this week
- Adata Viewer: Head/Less/Shape h5ad file in terminal☆11Aug 13, 2026Updated last month
- Universal Single-Cell Genomics Preprocessing package☆53Sep 15, 2026Updated 3 weeks ago
- ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)☆465Feb 18, 2025Updated last year
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- A tool for semi-automatic cell type classification☆510May 22, 2026Updated 4 months ago
- SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…☆266Jan 16, 2026Updated 8 months ago
- ☆39Sep 5, 2024Updated 2 years ago
- CellRank: dynamics from multi-view single-cell data☆457Updated this week
- Graph-linked unified embedding for single-cell multi-omics data integration☆481Feb 9, 2026Updated 8 months ago
- This is the alpha version of the CellOracle package☆502Apr 30, 2026Updated 5 months ago
- Paired-seq☆15Jul 17, 2024Updated 2 years ago
- Whole mouse brain snATAC seq analysis☆29Apr 18, 2025Updated last year
- Multimodal Data (.h5mu) implementation for Python☆134Updated this week
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Benchmarking computational single cell ATAC-seq methods☆186Nov 30, 2020Updated 5 years ago
- ☆27Apr 15, 2025Updated last year
- LIANA+: an all-in-one framework for cell-cell communication☆319Sep 24, 2026Updated 2 weeks ago
- Multi-omic velocity inference☆121Oct 23, 2024Updated last year
- A count based method for detecting doublets from single nucleus ATAC-seq (snATAC-seq) data.☆35Jan 3, 2023Updated 3 years ago
- A package to help convert different single-cell data formats to each other☆471Feb 20, 2026Updated 7 months ago
- SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data☆199Aug 24, 2026Updated last month
- Port of symphony algorithm of single-cell reference atlas mapping to Python☆34May 19, 2026Updated 4 months ago
- Reference mapping for single-cell genomics☆412Jun 26, 2026Updated 3 months ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- Single-cell analysis in Python. Scales to >100M cells.☆2,582Updated this week
- Python package to perform enrichment analysis from omics data.☆296Updated this week
- CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.☆488Jun 6, 2025Updated last year
- Bead-based single-cell atac processing☆33Jul 6, 2026Updated 3 months ago
- Benchmarking analysis of data integration tools☆432Apr 27, 2026Updated 5 months ago
- R toolkit for the analysis of single-cell chromatin data☆429Sep 11, 2026Updated last month
- Metacells - Single-cell RNA Sequencing Analysis☆131Updated this week
- Epigenomics Program pipeline to analyze SHARE-seq data.☆23Mar 30, 2025Updated last year
- Episcanpy: Epigenomics Single Cell Analysis in Python☆153Dec 5, 2024Updated last year
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆423Sep 12, 2026Updated 3 weeks ago
- Python implementation of Milo for differential abundance testing on KNN graph☆87Feb 17, 2025Updated last year
- Multiome GRN inference.☆144Apr 10, 2026Updated 6 months ago
- ☆50Oct 2, 2026Updated last week
- Context specific and dynamic gene regulatory network reconstruction and analysis☆134Aug 3, 2026Updated 2 months ago
- Co-accessibility network from single-cell ATAC-seq data. Python code with AnnData, based on Cicero algorithm.☆36May 23, 2026Updated 4 months ago
- Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)☆257Jun 9, 2026Updated 4 months ago