Links to ATAC-seq analysis tools
☆77Aug 24, 2021Updated 4 years ago
Alternatives and similar repositories for awesome-atac-analysis
Users that are interested in awesome-atac-analysis are comparing it to the libraries listed below
Sorting:
- Annotating epigenetic variation among samples with region sets in R☆11Jan 18, 2025Updated last year
- ☆10Apr 30, 2019Updated 6 years ago
- R package for Methylation-based Inference of Regulatory Activity☆13Apr 9, 2020Updated 5 years ago
- Notes on ChIP-seq and other-seq-related tools☆26Feb 6, 2026Updated last month
- Calculate and plot distributions of genomic ranges☆27Apr 23, 2025Updated 10 months ago
- Bedfile perturbation tool☆17Updated this week
- Reference genome resource manager☆74Updated this week
- ☆146Jan 7, 2019Updated 7 years ago
- ATAC-seq processing pipeline☆34Apr 8, 2022Updated 3 years ago
- Application for making ENCODE Blacklists☆334Apr 23, 2021Updated 4 years ago
- HMMRATAC peak caller for ATAC-seq data☆97Nov 12, 2024Updated last year
- Tutorial Website☆65Feb 1, 2021Updated 5 years ago
- ENCODE ATAC-seq pipeline☆447Jul 18, 2024Updated last year
- A modular, containerized pipeline for ATAC-seq data processing☆60Feb 18, 2026Updated 2 weeks ago
- DNA and RNA variant calling pipelines with HLA typing and Neoantigen predictions☆11Jul 8, 2021Updated 4 years ago
- ☆10Dec 8, 2023Updated 2 years ago
- deepStats: a stastitical toolbox for deeptools and genomic signals☆35Jul 5, 2021Updated 4 years ago
- Manager for multi-container computing environments☆26Feb 27, 2026Updated last week
- Identifying transcription factor binding sites from neural network contribution scores☆18Nov 8, 2025Updated 4 months ago
- A modular, containerized pipeline for PRO-seq data processing☆11Updated this week
- An R package for creating 3D barplots☆12Jan 8, 2023Updated 3 years ago
- MetaFX – library for feature extraction from whole-genome metagenome sequencing data☆16Feb 24, 2026Updated last week
- FinalVersions☆17Apr 3, 2017Updated 8 years ago
- Python package for conversions between ENSEMBL IDs and gene names (annotables + pyensembl)☆11Feb 2, 2026Updated last month
- Analyze CRISPR and shRNA functional genetic screening data☆12Dec 1, 2025Updated 3 months ago
- Deciphering cell-cell communication from spatially resolved transcriptomic data at single-cell resolution with subgraph-based attentional…☆28Sep 6, 2024Updated last year
- R/Bioconductor package for working with 10x scATACseq data☆42Nov 13, 2023Updated 2 years ago
- integrative pathway analysis with modern PCA methodology and gene selection☆11Jun 29, 2023Updated 2 years ago
- ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)☆447Feb 18, 2025Updated last year
- Riborex: Fast and flexible identification of differential translation from Ribo-seq data☆12Apr 9, 2021Updated 4 years ago
- NeoDisc - A computational pipeline for the identification and prioritization of immunogenic tumor-specific HLA-I and -II antigens from ge…☆14Oct 8, 2024Updated last year
- R package for tissue-specific gene enrichment☆15Mar 10, 2022Updated 3 years ago
- This repostory contains codes for Shimada et al., "A tool for browsing the Cancer Dependency Map reveals functional connections between g…☆13Sep 3, 2021Updated 4 years ago
- Single-cell Bisulfite Sequencing Data Mapping☆12May 19, 2021Updated 4 years ago
- Locus Overlap Analysis: Enrichment of Genomic Ranges☆79Sep 1, 2020Updated 5 years ago
- Augmented interval list (AIList): a novel data structure for efficient genomic interval search☆23Aug 29, 2022Updated 3 years ago
- Python implementation of Gene Trajectory☆30Sep 4, 2024Updated last year
- Co-accessibility network from single-cell ATAC-seq data. Python code with AnnData, based on Cicero algorithm.☆34Updated this week
- R toolkit for the analysis of single-cell chromatin data☆407Jan 20, 2026Updated last month