This repository contains pipeline wrapper for the analysis of ATAC Seq data. ATAC Seq protocols are used for transposase accessible chromatin regions.
- pyenv and pyenv-virtualenv
- Python 2.7.12
- Python Modules:
- pylint
- pytest
- mg-tool-api
- Cutadapt
- Bowtie2
- Trim Galore
- R
Directly from GitHub:
cd ${HOME}/code
git clone https://github.com/Multiscale-Genomics/mg-process-test.git
cd mg-process-test
Create the Python environment
pyenv-virtualenv 2.7.12 mg-process-test
pyenv activate mg-process-test
pip install -e .
pip install -r requirements.txt