skptic/atacflow repository overview

⁠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.

⁠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
• Julie Garcia (julie.perilla at gmail.com):
• Jingjing Zhao (jjzhao123 at gmail.com):
• Evan Floden (evanfloden at gmail.com): Workflow Wrangler
• Chi Zhang (chzh1418 at colorado.edu)