YuliaNuzhnenko/bioinformatics-agent-skills
The #1 open-source collection of scientific AI Agent Skills, tool specifications, and prompt protocols for Bioinformatics, Genomics, Drug Discovery, and Multi-Omics. Compatible with Cursor, Claude Code, Antigravity, and LangChain.
ARCHETYPE
Skill Collector
Ten-plus skills loaded on demand. A procedural-knowledge library.
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# review before running: this installs third-party code
$ npx degit YuliaNuzhnenko/bioinformatics-agent-skills/skills ./rig-bioinformatics-agent-skills/skills MCP servers are added to Claude Code at local scope; env vars are shown as YOUR_… placeholders — we never store values. Files are fetched with degit into a separate folder so you can review before merging.
$ npx degit YuliaNuzhnenko/bioinformatics-agent-skills/skills/alphafold-pocket-evaluator .claude/skills/alphafold-pocket-evaluator $ npx degit YuliaNuzhnenko/bioinformatics-agent-skills/skills/card-amr-profiler .claude/skills/card-amr-profiler $ npx degit YuliaNuzhnenko/bioinformatics-agent-skills/skills/diffdock-virtual-screener .claude/skills/diffdock-virtual-screener $ npx degit YuliaNuzhnenko/bioinformatics-agent-skills/skills/ensembl-vep-variant-annotator .claude/skills/ensembl-vep-variant-annotator $ npx degit YuliaNuzhnenko/bioinformatics-agent-skills/skills/gatk4-somatic-variant-caller .claude/skills/gatk4-somatic-variant-caller $ npx degit YuliaNuzhnenko/bioinformatics-agent-skills/skills/nextflow-dsl2-generator .claude/skills/nextflow-dsl2-generator $ npx degit YuliaNuzhnenko/bioinformatics-agent-skills/skills/pubmed-rag-synthesizer .claude/skills/pubmed-rag-synthesizer $ npx degit YuliaNuzhnenko/bioinformatics-agent-skills/skills/pydeseq2-bulk-rna .claude/skills/pydeseq2-bulk-rna $ npx degit YuliaNuzhnenko/bioinformatics-agent-skills/skills/qiime2-16s-microbiome .claude/skills/qiime2-16s-microbiome $ npx degit YuliaNuzhnenko/bioinformatics-agent-skills/skills/rdkit-qsar-pharmacophore .claude/skills/rdkit-qsar-pharmacophore $ npx degit YuliaNuzhnenko/bioinformatics-agent-skills/skills/scanpy-sc-analyzer .claude/skills/scanpy-sc-analyzer $ npx degit YuliaNuzhnenko/bioinformatics-agent-skills/skills/tcga-cibersort-deconv .claude/skills/tcga-cibersort-deconv
This rig commits no guardrails. Here is the community baseline instead — the deny/ask rules most often found across all 6,974 rigs:
{
"permissions": {
"deny": [
"Read(./.env)",
"Read(**/.env)",
"Read(~/.ssh/**)",
"Bash(rm -rf *)",
"Read(**/*.pem)",
"Bash(rm -rf /)",
"Bash(git push --force:*)",
"Bash(sudo *)",
"Read(~/.aws/**)",
"Bash(rm -rf /*)",
"Read(./.env.*)",
"Read(.env)",
"Bash(git push --force*)",
"Bash(rm -rf:*)",
"Read(**/.env.*)",
"Read(**/*.key)",
"Bash(sudo:*)",
"Bash(git reset --hard*)",
"Bash(git reset --hard:*)",
"Read(.env.*)"
],
"ask": [
"Bash(git push:*)",
"Bash(git push *)",
"Bash(git commit:*)",
"Bash(rm *)",
"Bash(rm:*)",
"Bash(npm publish:*)",
"Bash(wget *)",
"Bash(git rebase *)",
"Bash(gh pr merge *)",
"Bash(git commit *)"
]
}
} Skills (12)
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