NCBI-Hackathons/ATACFlow

This pipeline performs ATAC Seq using Nextflow

Introduction

NCBI-Hackathons/ATACFlow: This pipeline performs ATAC Seq using Nextflow

The pipeline is built using Nextflow, a workflow tool to run tasks across multiple compute infrastructures in a very portable manner. It comes with docker / singularity containers making installation trivial and results highly reproducible.

Reference

Have you found this pipeline useful to your research? You can cite it using DOI 10.17605/OSF.IO/UCWRH (OSF project).

Documentation

The NCBI-Hackathons/ATACFlow pipeline comes with documentation about the pipeline, found in the docs/ directory:

1. Installation
2. Pipeline configuration
   • Docker installation
   • Adding your HPC
3. Running the pipeline
4. Pipeline Components
5. Troubleshooting
6. Operating with Jupyter Notebook

Credits

This pipeline was written by ATACFlow Team @ RMGCH-18 (NCBI-Hackathons).

• Ignacio Tripodi (ignacio.tripodi at colorado.edu): Computer Scientist, closet wet-lab enthusiast
• Steve Tsang (hsinyi.tsang at nih.gov): Computational Biologist
• Jingjing Zhao (jjzhao123 at gmail.com): Bioinformatics Postdoctoral Scholar
• Evan Floden (evanfloden at gmail.com): Workflow Wrangler
• Chi Zhang (chzh1418 at colorado.edu):