De novo motif discovery and evaluation based on footprints identified by TOBIAS
Start with installing all dependencies listed above. Download all files from the GitHub repository. The Nextflow-script needs a conda enviroment to run. To create this enviroment you need the yml-file from the repository. Run the following commands to create the enviroment:
path=[Path to given masterenv.yml file]
conda env create --name masterenv -f=$path
source activate masterenvnextflow run pipeline.nf --input [INPUT-file] --bed [INPUT-bed] --genome_fasta [path to file] --jaspar_db [path to motif database as meme-file] --config uropa.configFor further information read the documentation
