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"GRAPE — Graph Representation learning for Analysis and Predictions and Evaluations. Use for GNN-based link prediction, node classification, graph embedding, pathway analysis, PPI network analysis, dr
Use with AI
Install the MCP server or CLI to instantly fetch GRAPE documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/grape
clusterProfiler — universal enrichment analysis tool for interpreting omics data using Gene Ontology, KEGG pathways, WikiPathways, Reactome, Disease Ontology, and custom gene sets. Implements over-rep
1 shared topic • 1 shared operation
MAGeCK-VISPR — comprehensive CRISPR screen analysis framework combining MAGeCK statistical testing (RRA and MLE algorithms) with VISPR interactive visualization. Supports sgRNA count generation from F
1 shared topic • 1 shared operation
MetaboAnalyst — comprehensive R package and web platform for metabolomics data analysis and interpretation. Provides statistical analysis (t-test, ANOVA, PCA, PLS-DA), pathway analysis (KEGG, SMPDB),
1 shared topic • 1 shared operation
Use when working with NetworkX, graph analysis in Python, biological network analysis, protein-protein interaction networks, gene regulatory networks, metabolic networks, pathway analysis, network top
1 shared topic • 1 shared operation
Reactome graph database — EMBL-EBI curated biological pathway knowledgebase with Neo4j graph backend and REST API. Supports pathway enrichment analysis, over-representation testing, graph topology tra
1 shared topic • 1 shared operation