Individual skill

pipeline-chipseq

Execute ENCODE ChIP-seq processing pipeline from FASTQ to peaks and signal tracks. Child of pipeline-guide. Provides stage-by-stage Nextflow execution with Docker containers and cloud deployment. Use when users need to process ChIP-seq data following ENCODE standards, run peak calling with MACS2, perform IDR analysis, or generate signal tracks. Trigger on: ChIP-seq pipeline, run ChIP-seq, process ChIP-seq, MACS2 peak calling, IDR analysis, ChIP-seq FASTQ processing.

skills/pipeline-chipseq/SKILL.md

Source commit 36836c8725fd4d20d9c851ce314f5151aea5f57c

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Network or broad shell

Last checked

Nov 6, 2026

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