PANANSE
A python package to prepare enhancer file for ANANSE package from fastq files.
- p300 ChIP-seq;
- ATAC-seq and H3K27ac.
Requirements
- Python >= 3.6
- ANANSE
- GimmeMotifs (development branch)
Installation
You will need conda using the bioconda channel.
Make sure you have conda installed. If you have not used bioconda before, first set up the necessary channels (in this order!). You only have to do this once.
$ conda config --add channels defaults
$ conda config --add channels bioconda
$ conda config --add channels conda-forge
Now you can create an environment for pananse:
conda create -n pananse python=3
conda activate pananse
Install the latest release of pananse:
pip install git+https://github.com/qxuchn/PANANSE.git
Usage
Remember to activate the environment before using it
conda activate pananse