functional-analysis
Review a bounded human gene set with Reactome pathway overrepresentation and STRING identifier mapping, enrichment, functional association networks, and PPI…
Skill by phenixace
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Install
Works with Claude Code, Claude apps, Codex, Cursor, Gemini CLI, GitHub Copilot, VS Code, OpenCode, Goose, Windsurf. Read the repository before you give any tool access to your data.
npx agentmarket install skill/phenixace-functional-analysis
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About
Reviews
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Permissions
What this skill can do and what it asks for, from its SKILL.md. Checked Oct 25, 2026.
- Tools
- No tools found
- Secrets
- None asked for
- Install scripts
- None found
- Runs as
- Python package
Network hosts it talks to 1
codeload.github.com· found in install command
Files it touches
~/.claude/skills/functional-analysis
What's inside
- Skill name
functional-analysis- Description
- Review a bounded human gene set with Reactome pathway overrepresentation and STRING identifier mapping, enrichment, functional association networks, and PPI enrichment. Use preflight to confirm mappings and parameters; persist the full analysis only after researcher approval.
- License
- MIT
- Instructions
- 9 lines in SKILL.md · view on GitHub
Before installing
- Ships executable scripts
Files (4)
- SKILL.md
- openai.yaml · agents/
- handler.py · scripts/
- skill.json
SKILL.md (first lines)
# Gene-set Functional Analysis Use `functional_analysis_preflight` for two to fifty human gene or protein identifiers. Confirm every STRING mapping, unmapped identifier, the STRING confidence threshold, FDR threshold, reported-term limit, and whether disease pathways are included. Use `functional_analysis_run` only through a researcher-approved workflow. Keep Reactome and STRING results separate in the evidence record; do not merge their statistics into an invented score. Preserve official source links, STRING version, retrieval time, parameters, input identifiers, mappings, output tables, and the run manifest. Reactome overrepresentation depends on list construction and reference coverage. FDR is a multiple-testing correction, not the probability that a pathway is true. STRING edges are functional associations and do not necessarily represent direct physical interactions. Database enrichment is a hypothesis-generating result, not causal or replicate-level evidence.
From phenixace/Molemo_WorkBench, MIT.
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Search ClinicalTrials.gov for a bounded trial landscape or review the posted tabular results of one exact NCT record.
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dna-variant-calling
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Preflight and run a bounded, researcher-approved paired-end short-read DNA alignment and candidate variant-calling workflow with local BWA, samtools, and…
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Discover public NCBI GEO Series from a biological question with exact GSE-only query provenance, bounded metadata, study-design caveats, and an approved…
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Signals
- Stars
- 2
- Forks
- 0
- Open issues
- 0
- Last commit (this folder)
- Aug 29, 2026 (2 months ago)
From GitHub (fetched Oct 24, 2026).
Details
- License
- MIT
- Repository
- github.com/phenixace/Molemo_WorkBench
- First seen
- Oct 24, 2026
- Last checked
- Oct 24, 2026
- Source
- GitHubgithub-graphql
More from phenixace
- 0.557score
scientific-visualization
phenixace
Turn molecular and protein analysis results into declarative property charts and residue-level sequence tracks.
SkillBFreshness: B★ 2Claude Code +9 - 0.557score
chembl-bioactivity
phenixace
Review source-linked ChEMBL small-molecule activity evidence for an exact UniProt single-protein target.
SkillBFreshness: B★ 2Claude Code +9 - 0.557score
hmmer-profile-search
phenixace
Validate and run bounded local HMMER3 profile-to-protein searches with domain coordinates, explicit thresholds, researcher approval and auditable outputs.
SkillBFreshness: B★ 2Claude Code +9 - 0.557score
research-router
phenixace
Route broad life-science research questions to the smallest useful set of Molemo skills.
SkillBFreshness: B★ 2Claude Code +9 - 0.557score
protein-structure
phenixace
Retrieve experimental structures from RCSB PDB, predicted structures from AlphaFold DB, or parse PDB/mmCIF files in the local workspace.
SkillBFreshness: B★ 2Claude Code +9 - 0.557score
guided-workflows
phenixace
Create reviewable, researcher-approved plans from Molemo scientific tools.
SkillBFreshness: B★ 2Claude Code +9
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Cite this page
functional-analysis skill. Agent Mart. https://agentmart.dev/skills/phenixace-functional-analysis (last updated 2026-10-24)