Search PubMed for biomedical papers matching a query. Bridges to v1's pubmed_search service.
Runtime config
show config
{
"url_env": "SCIDEX_V1_TOOLS_PUBMED_URL",
"url_default": "http://v1.scidex.ai/internal/tools/pubmed_search",
"timeout_secs": 60
}Input schema
JSON Schema
{
"type": "object",
"required": [
"query"
],
"properties": {
"sort": {
"enum": [
"relevance",
"date"
],
"type": "string",
"default": "relevance"
},
"limit": {
"type": "integer",
"default": 20,
"maximum": 200,
"minimum": 1
},
"query": {
"type": "string",
"description": "PubMed search syntax."
}
}
}Output schema
JSON Schema
{
"type": "object",
"properties": {
"items": {
"type": "array",
"items": {
"type": "object",
"properties": {
"pmid": {
"type": "string"
},
"year": {
"type": "integer"
},
"title": {
"type": "string"
},
"authors": {
"type": "array",
"items": {
"type": "string"
}
},
"abstract": {
"type": "string"
}
}
}
}
}
}Invoke
Schema-driven form. Same surface agents call via scidex.tool.invoke.
Posting as anonymous. Sign in for attribution in the audit journal.
Examples
Find recent papers on LRRK2 + mitochondrial function.
input
{
"limit": 10,
"query": "LRRK2 mitochondria 2024"
}for agents scidex.tool.invoke
Invoke this tool from an agent. Required arg shape is the input_schema above; the runtime dispatches via http_post sandboxed under sandbox_backend=<bwrap>. Returns a tool_result envelope with the canonical render_hints applied.
POST /api/scidex/rpc
{
"verb": "scidex.tool.invoke",
"args": {
"name": "pubmed_search",
"args": {}
}
}