https://github.com/sebastian-gregoricchio/snakeatac

Snakemake pipeline for analysis and normalization of ATAC-seq data starting from fastq.gz files.
https://github.com/sebastian-gregoricchio/snakeatac

atac-seq atac-seq-pipeline chromatin-accessibiity data-analysis epigenomics pipeline snakemake

Last synced: 12 days ago
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Snakemake pipeline for analysis and normalization of ATAC-seq data starting from fastq.gz files.

• Host: GitHub
• URL: https://github.com/sebastian-gregoricchio/snakeatac
• Owner: sebastian-gregoricchio
• License: gpl-3.0
• Created: 2021-12-12T16:50:57.000Z (over 4 years ago)
• Default Branch: main
• Last Pushed: 2026-02-12T17:58:54.000Z (4 months ago)
• Last Synced: 2026-02-13T01:22:57.099Z (4 months ago)
• Topics: atac-seq, atac-seq-pipeline, chromatin-accessibiity, data-analysis, epigenomics, pipeline, snakemake
• Language: Python
• Homepage:
• Size: 4.75 MB
• Stars: 3
• Watchers: 1
• Forks: 1
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • Changelog: NEWS.md
  • License: LICENSE

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# snakeATAC [](https://sebastian-gregoricchio.github.io/snakeATAC)




## Introduction

`snakeATAC` is a **snake**make pipeline for the analyses of **ATAC**-seq data, with some analyses specific to cancer samples.

### Citation

If you use this pipeline, please cite:







No publication associated yet. "snakeATAC: a Snakemake Pipeline for the analyses of ATAC-seq data in Cancer samples. 


XYZ, Volume X, Issue X, 2023, XYZ 


DOI: XYZ











## Documentation [](https://github.com/sebastian-gregoricchio/snakeATAC/wiki)

Details on the [installation](https://github.com/sebastian-gregoricchio/snakeATAC/wiki/02.-Installation-and-dependencies) and [usage](https://github.com/sebastian-gregoricchio/snakeATAC/wiki/) of `snakeATAC` can be found at the dedicated [Wiki](https://github.com/sebastian-gregoricchio/snakeATAC/wiki/).





-----------------

## Package history and releases

A list of all releases and respective description of changes applied could be found [here](https://sebastian-gregoricchio.github.io/snakeATAC/NEWS).

## Contact

For any suggestion, bug fixing, commentary please report it in the [issues](https://github.com/sebastian-gregoricchio/snakeATAC/issues)/[request](https://github.com/sebastian-gregoricchio/snakeATAC/pulls) tab of this repository.

## License

This repository is under a [GNU General Public License (version 3)](https://sebastian-gregoricchio.github.io/snakeATAC/LICENSE.md/LICENSE).




#### Contributors

[![contributors](https://contrib.rocks/image?repo=sebastian-gregoricchio/snakeATAC)](https://sebastian-gregoricchio.github.io/)