exoDIVERSITY is a tool that can be used to resolve diverse protein-DNA footprints from exonuclease based ChIP experiments such as ChIP-exo or ChIP-nexus.
Prerequisites
The core engine is written in C with a python wrapper for the parallel processing and plotting. It also uses R to plot the final heatmap images.
The following packages need to be installed for running exoDIVERSITY:
- Python 2.7+ (Not compatible with Python 3.x)
- python-numpy
- python-ctypes
- python-multiprocessing
- python-re
- python-matplotlib
- R >= 3.3
- R packages: RColorBrewer and plotfunctions
Extra tools needed:
- bedtools v2.25.0
- twoBitToFa: UCSC tool to extract fasta sequences from .2bit file
Extra files needed:
- .2bit file for the respective genome assembly
Download
exoDIVERSITY can be downloaded
from https://github.com/NarlikarLab/exoDIVERSITY/archive/exodiversity.tar.gz.
It can be run on any Mac or Linux system.
Installation
In order to download and install exoDIVERSITY, execute the following steps:
Contact
For further details
Email: leelavati AT iiserpune.ac.in
License
GNU General Public License v3.0