Test data for running snakePipes : HiC workflow
Test files for running snakePipes workflows
snakePipes are pipelines built using snakemake and python for the analysis of epigenomic datasets. Please refer to this link for further information on snakePipes.
This folder contains test files that can be used to run the HiC workflow under snakePipes. To test the workflow, follow the following steps :
- Download or prepare genome fasta, indices and annotations for the mouse (mm9) genome.
- Download and install snakePipes via `conda create -n snakePipes -c mpi-ie -c bioconda -c conda-forge snakePipes`
- Update Genome configuration file with path to indices and annotations.
- Move to this repository and run the example command in command.sh.