alterlab-reactome
De la autor
Query the Reactome REST API for pathway analysis, over-representation/enrichment, gene-to-pathway mapping, disease pathways, molecular interactions, and expression analysis. Use when running pathway enrichment on a gene list, mapping genes to curated biological pathways, or exploring disease pathways for systems biology studies. Part of the AlterLab Academic Skills suite.
Instalare
npx skills add AlterLab-IEU/AlterLab-Academic-Skills --skill alterlab-reactome -a claude-code
Se instalează în .claude/skills/alterlab-reactome/ · Fiecare comandă descarcă skill-ul direct de pe GitHub cu utilitarul open source skills.
Descarcă .zip
Identic octet cu octet cu commit-ul scanat, cu licența depozitului și un fișier SOURCE.txt.
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Verificări de siguranță pe SKILL.md
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De ce 77
Securitate85
Proveniență63
Întreținere100
Licență100
Adopție33
aiqbench calculează scorul de încredere din semnale publice. Nu este un audit de securitate, așa că citește un skill înainte să-l instalezi.
Skill-uri similare
Cele mai apropiate de acesta prin ce fac și când sunt folosite.
- reactome-databasejaechang-hits/SciAgent-SkillsQuery Reactome pathways via REST: pathway queries, entity lookup, keyword search, gene list enrichment, hierarchy, cross-refs. Content + Analysis services. Python wrapper: reactome2py. For KEGG use kegg-database; for PPIs use string-database-ppi.Date★ 383
- alterlab-keggAlterLab-IEU/AlterLab-Academic-SkillsProvide direct REST API access to KEGG (academic use only) for pathway analysis, gene-to-pathway and compound-to-pathway mapping, metabolic reactions, KEGG Orthology (KO), drug-drug interactions, and ID conversion. Use when querying KEGG pathways, mapping genes/compounds to metabolic maps, or running KEGG pathway enrichment via raw HTTP/REST; for protein-protein interaction networks prefer alterlab-string-db, for protein sequences and annotations prefer alterlab-uniprot, and for Python workflows spanning many databases prefer alterlab-bioservices instead. Part of the AlterLab Academic Skills suite.Știință★ 78
- pathway-enrichmentK-Dense-AI/scientific-agent-skillsPerforms pathway and gene-set enrichment analysis on gene lists or ranked gene data and interprets the results. Used when the user has a set of genes (differentially expressed genes from PyDESeq2/Scanpy, CRISPR-screen hits, cluster marker genes, proteomics hits) and wants to know which biological pathways, GO terms, or gene sets are over-represented or enriched. Covers over-representation analysis (ORA / Enrichr / Fisher / hypergeometric), ranked Gene Set Enrichment Analysis (GSEA / preranked), single-sample scoring (ssGSEA/GSVA), and functional profiling via gseapy, g:Profiler, Enrichr libraries, MSigDB, GO, KEGG, Reactome, and WikiPathways — plus gene-ID mapping, choosing the right background universe, multiple-testing correction, redundancy reduction, dotplots/enrichment maps, and publication-ready tables. Use this for "pathway analysis", "enrichment analysis", "GO enrichment", "KEGG/Reactome pathways", "GSEA", "over-representation", "functional annotation", or "what pathways are my genes in".Testare★ 54.5K
- alterlab-pubmedAlterLab-IEU/AlterLab-Academic-SkillsProvide direct REST API access to PubMed via the NCBI E-utilities API, supporting advanced Boolean/MeSH queries, batch processing, and citation management. Use when searching biomedical literature by MeSH terms, retrieving abstracts or PMIDs in bulk, or scripting custom PubMed queries over raw HTTP/REST — for Python workflows prefer biopython (Bio.Entrez) instead, use this for direct REST work or custom API implementations. Part of the AlterLab Academic Skills suite.Inginerie★ 78
- alterlab-parallel-webAlterLab-IEU/AlterLab-Academic-SkillsSearch the web, run deep research, and extract content from known URLs via Parallel Web Systems — the Chat API (Beta, OpenAI-compatible `base`/`core` research models) for synthesized answers with inline citations and the Extract API v1 for URL content — with notes on the raw Search, Task, and Responses APIs. Use when running general web searches, current-events/market/technical lookups, broad information gathering, comprehensive research reports, or verifying a specific URL's content (requires PARALLEL_API_KEY). For scholarly paper retrieval or dual-backend academic lookup that auto-routes to Perplexity prefer alterlab-research-lookup instead. Part of the AlterLab Academic Skills suite.Știință★ 78
- alterlab-ensemblAlterLab-IEU/AlterLab-Academic-SkillsQuery the Ensembl genome database REST API across 250+ species for gene lookups, sequence retrieval, variant analysis, comparative genomics, orthologs, and Variant Effect Predictor (VEP) annotations. Use when mapping gene IDs or coordinates, fetching genomic sequence, finding orthologs across species, or predicting variant consequences for genomic research. Part of the AlterLab Academic Skills suite.Date★ 78
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