homer-motif-analysis

Name: homer-motif-analysis
Rating: 5 (1 reviews)
Author: bg-szy

De novo and known TF motif enrichment in ChIP-seq/ATAC-seq peaks via HOMER. findMotifsGenome.pl finds over-represented patterns vs background; annotatePeaks.pl assigns context (TSS distance, gene, repeat). Use after MACS3 to identify enriched TFs, annotate peaks with nearest genes, and validate ChIP-seq via the target motif.

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Updated 18 days ago

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HOMER — Motif Analysis and Peak Annotation

Overview

HOMER (Hypergeometric Optimization of Motif EnRichment) is a suite of Perl/C++ tools for analyzing genomic regulatory elements. Its two primary commands are findMotifsGenome.pl, which performs de novo motif discovery and known motif enrichment against JASPAR/HOMER databases, and annotatePeaks.pl, which maps each peak to the nearest gene, distance to TSS, and genomic feature class (promoter, intron, intergenic, repeat). HOMER takes BE

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