Benchmarking computational single cell ATAC-seq methods
☆184Nov 30, 2020Updated 5 years ago
Alternatives and similar repositories for scATAC-benchmarking
Users that are interested in scATAC-benchmarking 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☆322Apr 27, 2023Updated 3 years ago
- Scasat is a single cell ATAC-seq preprocessing and analysis pipeline☆35Feb 27, 2019Updated 7 years ago
- Constructing gene regulatory networks by integrating scRNA-seq and scATAC-seq data☆13Dec 7, 2021Updated 4 years ago
- Publication Page for Satpathy*, Granja* et al 2019☆96Apr 29, 2020Updated 6 years ago
- cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data☆147Apr 5, 2024Updated 2 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Episcanpy: Epigenomics Single Cell Analysis in Python☆151Dec 5, 2024Updated last year
- Single-cell ATAC-seq analysis via Latent feature Extraction☆104Aug 23, 2023Updated 2 years ago
- my notes for scATACseq analysis☆133Apr 24, 2024Updated 2 years ago
- ☆21Jul 3, 2019Updated 6 years ago
- R/Bioconductor package for working with 10x scATACseq data☆42Nov 13, 2023Updated 2 years ago
- chromatin Variability Across Regions (of the genome!)☆190May 1, 2026Updated 3 weeks ago
- Single-cell Transcriptome and Regulome Analysis Pipeline☆310Mar 6, 2023Updated 3 years ago
- ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)☆451Feb 18, 2025Updated last year
- Single-cell epigenomics analysis tools☆319Mar 13, 2026Updated 2 months ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- A rapid and robust plate-based single cell ATAC-seq (scATAC-seq) method☆43Feb 9, 2021Updated 5 years ago
- Publication Page for MPAL Paper 2019☆86Jun 25, 2020Updated 5 years ago
- STREAM: Single-cell Trajectories Reconstruction, Exploration And Mapping of single-cell data☆182Dec 18, 2021Updated 4 years ago
- ENCODE ATAC-seq pipeline☆450Jul 18, 2024Updated last year
- Snakemake pipeline for plate scATAC-seq processing☆26Dec 7, 2023Updated 2 years ago
- Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.☆3,735May 2, 2026Updated 2 weeks ago
- ☆10Apr 28, 2023Updated 3 years ago
- Reproducibility for the "Harmonization and Annotation of Single-cell Transcriptomics data with Deep Generative Models" paper☆13Jul 15, 2022Updated 3 years ago
- scOpen: single-cell open chromatin analysis via NMF modelling☆28Feb 4, 2023Updated 3 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- A toolkit for QC and visualization of ATAC-seq results.☆75Jan 8, 2025Updated last year
- R toolkit for the analysis of single-cell chromatin data☆416Apr 20, 2026Updated last month
- An unsupervised approach for the integrative analysis of single-cell multi-omics data☆32Nov 16, 2020Updated 5 years ago
- Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction …☆495Apr 23, 2026Updated 3 weeks ago
- ☆145Jan 7, 2019Updated 7 years ago
- ChIP-seq analysis notes from Ming Tang☆850Aug 5, 2024Updated last year
- ☆59Mar 18, 2026Updated 2 months ago
- Code related to Swanson, et. al. for TEA-seq, ICICLE-seq, and scATAC-seq data processing, analysis, and visualization☆13Sep 20, 2021Updated 4 years ago
- Deep learning based processing of Atac-seq data☆135Feb 16, 2023Updated 3 years ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data☆24Sep 23, 2024Updated last year
- scATAC-seq data analysis tools and papers☆132Jul 1, 2025Updated 10 months ago
- Single cell trajectory detection☆311Apr 21, 2026Updated last month
- Repo for website and other code for mouse sci-ATAC-seq project☆30Oct 1, 2020Updated 5 years ago
- A package to help convert different single-cell data formats to each other☆465Feb 20, 2026Updated 3 months ago
- single-cell Nucleosome Methylation Transcription☆14Mar 5, 2018Updated 8 years ago
- Differential expression analysis for single-cell RNA-seq data.☆206Oct 21, 2025Updated 7 months ago