Analysis pipeline for ATAC-seq data
☆91Oct 30, 2023Updated 2 years ago
Alternatives and similar repositories for ATAC-seq
Users that are interested in ATAC-seq are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Basic workflow for ATAC-seq analysis☆99Feb 23, 2024Updated 2 years ago
- Code associated with with the 2023 Nature Genetics Paper "Region Capture Micro-C reveals coalescence of enhancers and promoters into nest…☆12May 31, 2023Updated 3 years ago
- ☆147Jan 7, 2019Updated 7 years ago
- ENCODE ATAC-seq pipeline☆458Jul 18, 2024Updated 2 years ago
- ☆31Sep 22, 2023Updated 2 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.
- Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal☆254Aug 3, 2026Updated 3 weeks ago
- ☆46Oct 16, 2024Updated last year
- scRNA analysis of public dataset on bladder cancer☆20Dec 12, 2025Updated 8 months ago
- Tutorial Website☆68Feb 1, 2021Updated 5 years ago
- A Shiny web app for mapping datasets using Seurat v4☆150May 22, 2026Updated 3 months ago
- ☆15Oct 24, 2025Updated 10 months ago
- Website Deployment for CRC User Manual☆13Updated this week
- ☆61Aug 8, 2024Updated 2 years ago
- De novo construction of isoforms from long-read data☆39Updated this week
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Using combined evidence from replicates to evaluate ChIP-seq peaks☆22Mar 14, 2026Updated 5 months ago
- Tutorial of single-cell RNA-ATAC multiomic sequencing data analysis☆84Apr 16, 2026Updated 4 months ago
- Repository for Ruff, King et al. Molecular grammars of predicted intrinsically disordered regions that span the human proteome☆19Dec 29, 2025Updated 8 months ago
- Genomic coordinates of problematic genomic regions as GRanges☆53Aug 7, 2026Updated 3 weeks ago
- R code in workflow of chip-seq analysis☆11Nov 20, 2019Updated 6 years ago
- Notebooks for CPA figures☆15Dec 9, 2022Updated 3 years ago
- Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".☆137Sep 6, 2024Updated last year
- ☆35Oct 4, 2024Updated last year
- SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…☆262Jan 16, 2026Updated 7 months 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.
- Step-by-step analysis pipeline for RNA-seq data☆182Sep 5, 2023Updated 2 years ago
- Blazing fast toolkit to work with .hic and .cool files☆46Updated this week
- Fontanka is a set of tools to work with fountains in Hi-C data. It aims to provide a flexible Python API and specialized CLI for calling …☆14Dec 22, 2025Updated 8 months ago
- Whole mouse brain snATAC seq analysis☆29Apr 18, 2025Updated last year
- Methods to discover gene programs on single-cell data☆207Jul 21, 2026Updated last month
- R package for querying the DrugBank database in batch locally☆38Jul 30, 2021Updated 5 years ago
- RNA-Seq normalization and quantification pipeline☆12Nov 25, 2024Updated last year
- Data analysis scripts for Datlinger et. al, 2017 (doi:10.1038/nmeth.4177)☆34Feb 22, 2018Updated 8 years ago
- Micro-C QC and data analysis☆18Aug 1, 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.
- ☆17May 14, 2026Updated 3 months ago
- Single-Cell Spatial Explorer☆15Dec 14, 2023Updated 2 years ago
- A preprocessing and QC pipeline for HiChIP data☆40Jul 11, 2022Updated 4 years ago
- AUCell: score single cells with gene regulatory networks☆202Mar 9, 2024Updated 2 years ago
- QC report generator for Hi-C pairs file☆13Sep 14, 2020Updated 5 years ago
- scPred package for cell type prediction from scRNA-seq data☆106Jan 18, 2024Updated 2 years ago
- Data available at: https://www.dropbox.com/sh/jh4s57kgbb0rnxe/AABoMK466cGc1OKsOuFN10wca?dl=0 and https://nyulangone-my.sharepoint.com//g/…☆31Aug 17, 2022Updated 4 years ago