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December 3, 2018 14:38
December 3, 2018 15:03
December 3, 2018 14:59
November 8, 2018 04:50

masterJLU2018

De novo motif discovery and evaluation based on footprints identified by TOBIAS

Dependencies

Installation

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 masterenv

Quick Start

nextflow 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.config

Parameter

For further information read the documentation