BI
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bio-metabolomics-lipidomics
Specialized lipidomics analysis for lipid identification, quantification, and pathway interpretation. Covers LC-MS lipidomics with LipidSear…
FreedomIntelligence/OpenClaw-Medical-SkillsView
Data & Repro
BI
bio-metabolomics-pathway-mapping
Maintainer FreedomIntelligence · Last updated April 1, 2026
Map metabolites to biological pathways using KEGG, Reactome, and MetaboAnalyst. Perform pathway enrichment and topology analysis. Use when interpreting metabolomics results in the context of biochemical pathways.
Original source
FreedomIntelligence/OpenClaw-Medical-Skills
https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-metabolomics-pathway-mapping
- Maintainer
- FreedomIntelligence
- License
- MIT
- Last updated
- April 1, 2026
Skill Snapshot
Key Details From SKILL.md
Key Notes
- R: MetaboAnalystR::SetMetabolomeFilter() → PerformDetailMatch() → pathway topology.
- Map my metabolites to pathways" → Perform pathway enrichment and topology analysis using KEGG, Reactome, or MetaboAnalyst to interpret metabolomics results in biochemical context. R: MetaboAnalystR::SetMetabolomeFilter() → PerformDetailMatch() → pathway topology.
- mSet <- InitDataObjects('conc', 'pathora', FALSE).
Source Doc
Excerpt From SKILL.md
KEGG Pathway Enrichment
library(MetaboAnalystR)
## Set organism
mSet <- SetOrganism(mSet, 'hsa') # Human
## Load metabolite list (HMDB IDs or compound names)
metabolites <- c('HMDB0000001', 'HMDB0000005', 'HMDB0000010') # Example HMDB IDs
Use cases
- Use when interpreting metabolomics results in the context of biochemical pathways.
Not for
- Do not rely on this catalog entry alone for installation or maintenance details.
Upstream Related Skills
- metabolite-annotation - Identify metabolites first
- statistical-analysis - Get significant metabolites
- pathway-analysis/kegg-pathways - Similar enrichment concepts for genes
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