pipeline-cutandrun
pipeline-cutandrun is a Bioinformatics & life sciences skill for AI agents, published by ammawla in the encode-toolkit repository on GitHub. Skillspace rates pipeline-cutandrun C (73/100) and it passed the safety scan; the rating is based on static analysis only.
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.
- Grade
- C
- Quality
- 73 / 100
- Safety
- Passed
- GitHub stars
- 37
Unproven: rated by static analysis only, not yet compared head-to-head.
This rating describes the version of the repository we crawled; it may have changed since, so go by its current files.
Our review
- Architecture
- 97 / 100
- Maturity
- Structured: ships references or scripts
- Security scan
- No issues found
- License
- AGPL-3.0
- Adoption
- Adopted by 0 other repositories, in 1 collections
Not checked yet
- Not judged on the rubric yet (not a contender in its category)
- No blind task eval yet
- Scope (portable / vendor / repo-internal) not assessed; only the top of each category is read for scope
- Sibling files (scripts, references) not fetched; security scan covers SKILL.md only
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