Individual skill

pipeline-cutandrun

Execute CUT&RUN processing pipeline from FASTQ to peaks and signal tracks. Child of pipeline-guide. Provides Nextflow execution with Docker and cloud deployment. Use when processing CUT&RUN or CUT&Tag data, an alternative to ChIP-seq with lower background. Trigger on: CUT&RUN pipeline, CUT&Tag, SEACR, Henikoff, targeted chromatin, pA-MNase, process CUT&RUN.

skills/pipeline-cutandrun/SKILL.md

Source commit 36836c8725fd4d20d9c851ce314f5151aea5f57c

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Network or broad shell

Last checked

Nov 6, 2026

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