Biocli
Description
Agent execution layer for biology workflows: batch gene scanning, tumor cohort briefing, target discovery — with structured outputs, resume, and pipeline-ready artifacts
Installation
This entry records only its repository, not the path inside it, so there is no
exact command to give. Open the source below and copy the folder into
~/.claude/skills/, or the file into ~/.claude/agents/.
README
biocli
[](https://doi.org/10.5281/zenodo.19483760) [](https://github.com/youngfly93/biocli/actions/workflows/ci.yml) [](https://www.npmjs.com/package/@yangfei_93sky/biocli) [](https://nodejs.org) [](LICENSE) [](https://github.com/youngfly93/biocli/releases) [](benchmarks/v2/runs/report-public-stable/public_report.md)
**biocli is the execution layer for agent-driven biology workflows.** Use it for three things first:
- batch gene scanning across core public databases
- tumor cohort briefing with cBioPortal prevalence, variants, and co-mutations
- target discovery with Open Targets evidence and GDSC sensitivity context
It stays useful because the outputs are structured, resumable, and pipeline-friendly:
- summary-first hero workflows via
data.agentSummary - batch runs via
--input-file,--outdir, and--resume - stable run artifacts via
results.jsonl,summary.csv,manifest.json, andmethods.md
biocli v0.9.0
NCBI · UniProt · KEGG · STRING · Ensembl · Enrichr · ProteomeXchange · PRIDE · cBioPortal · Open Targets · GDSC · Unimod (local)
Task-first entrypoints: batch gene scanning · tumor cohort briefing · target Related Skills
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