bio-alignment-amplicon-clipping

bio-alignment-amplicon-clipping is a Bioinformatics & life sciences skill for AI agents, published by GPTomics in the bioSkills repository on GitHub. Skillspace rates bio-alignment-amplicon-clipping B (81/100) and it passed the safety scan; the rating is based on static analysis only.

Trim PCR primers from aligned reads in amplicon-panel BAMs using samtools ampliconclip. Use when processing SARS-CoV-2 ARTIC, hereditary cancer panels, ctDNA hot-spot panels, or any amplicon assay where primer-derived bases would falsely confirm reference at primer footprints.

Grade
B
Quality
81 / 100
Safety
Passed
GitHub stars
1,025

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.

View source on GitHubGPTomics/bioSkills

Our review

Architecture
100 / 100
Maturity
Structured: ships references or scripts
Security scan
No issues found
License
MIT
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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