The purpose of this workflow is to prepare easy-to-use preprocessing steps for ChIP-nexus data analysis. Additionally, some issues are fixed, new rules are added to the snakemake workflow and put all the workflow is put in the conda environment.
This workflow is the modification of pipeline orginally developed by Melanie Weilert and Jeff Johnston. (Reference: https://github.com/mlweilert/chipnexus-processing-scripts)
ChIP-nexus is the extension of ChIP-exo protocol, used to detect in vivo transcription factor binding footprint. This protocol is developed by Julia Zeitlinger and colleagues at the Stowers Institute for Medical Research, USA. The original publication is found at: https://doi.org/10.1038/nbt.3121