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
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- 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☆132Apr 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!)☆191May 1, 2026Updated 2 months ago
- Single-cell Transcriptome and Regulome Analysis Pipeline☆311Mar 6, 2023Updated 3 years ago
- ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)☆458Feb 18, 2025Updated last year
- Single-cell epigenomics analysis tools☆321Updated this week
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- 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 6 years ago
- STREAM: Single-cell Trajectories Reconstruction, Exploration And Mapping of single-cell data☆183Dec 18, 2021Updated 4 years ago
- ENCODE ATAC-seq pipeline☆453Jul 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.☆3,771Jun 23, 2026Updated last week
- ☆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
- 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.
- 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☆420Jun 20, 2026Updated last week
- 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 …☆503Updated this week
- ☆145Jan 7, 2019Updated 7 years ago
- ChIP-seq analysis notes from Ming Tang☆849Aug 5, 2024Updated last year
- ☆59Mar 18, 2026Updated 3 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
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- 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 last year
- Single cell trajectory detection☆322Apr 21, 2026Updated 2 months ago
- 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☆470Feb 20, 2026Updated 4 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 8 months ago