Epigenomics Peaks

Use this skill as the epigenomics dispatcher for ATAC-seq, ChIP-seq, CUT&RUN, or CUT&Tag analysis. Hand off to the assay-specific deep skill once the assay type is known.

Essential Inputs

Confirm:

• assay type
• FASTQ or BAM input
• organism and genome build
• blacklist file, if available
• control samples: input DNA, IgG, or spike-in
• biological replicates
• peak type: narrow, broad, accessibility, or protocol-specific
• desired outputs: QC report, peaks, consensus peaks, bigWigs, differential peaks

Public Defaults