Server Configuration
Describes the environment variables required to run the server.
| Name | Required | Description | Default |
|---|---|---|---|
No arguments | |||
Schema
Prompts
Interactive templates invoked by user choice
| Name | Description |
|---|---|
No prompts | |
Resources
Contextual data attached and managed by the client
| Name | Description |
|---|---|
No resources | |
Tools
Functions exposed to the LLM to take actions
| Name | Description |
|---|---|
| search_pathways | Search for biological pathways by name, description, or keywords |
| get_pathway_details | Get comprehensive information about a specific pathway |
| find_pathways_by_gene | Find all pathways containing a specific gene or protein |
| find_pathways_by_disease | Find disease-associated pathways and mechanisms |
| get_pathway_hierarchy | Get hierarchical structure and parent/child relationships for a pathway |
| get_pathway_participants | Get all molecules (proteins, genes, compounds) participating in a pathway |
| get_pathway_reactions | Get all biochemical reactions within a pathway |
| get_protein_interactions | Get protein-protein interactions within pathways |