name: homer_annotatepeaks description: Annotate peaks with HOMER suite keywords: - annotations - peaks - bed tools: - homer: description: | HOMER (Hypergeometric Optimization of Motif EnRichment) is a suite of tools for Motif Discovery and next-gen sequencing analysis. documentation: http://homer.ucsd.edu/homer/ doi: 10.1016/j.molcel.2010.05.004. input: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - peaks: type: file description: The peak files in bed format pattern: "*.bed" - fasta: type: file description: Fasta file of reference genome pattern: "*.fasta" - gtf: type: file description: GTF file of reference genome pattern: "*.gtf" output: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - annotated_peaks: type: file description: The annotated peaks pattern: "*annotatePeaks.txt" - versions: type: file description: File containing software versions pattern: "versions.yml" authors: - "@drpatelh" - "@kevinmenden"