brapi_connect

MCP tool from Brapi MCP Server by cyanheads

Authenticate, register the connection under an alias, cache the capability profile, and return the orientation envelope inline. One call fully orients the agent.

How to use it

brapi_connect is exposed by the Brapi MCP Server MCP server. Add the server to your MCP client (Claude Desktop, Cursor, Windsurf and others), and the brapi_connect tool becomes available to the model automatically. See the full listing for setup details and every tool this server provides.

Install Brapi MCP Server

$docker run --rm -p 3010:3010 brapi-mcp-server

FULL BRAPI MCP SERVER LISTING

Other tools in Brapi MCP Server (24)

brapi_build_phenotype_matrix

Build a germplasm × trait matrix from one or more studies and materialize it as a canvas dataframe. Supports wide (pivot) or long shape with configurable per-cell aggregation.

brapi_dataframe_describe

Start here after a spillover. Lists dataframes (or describes one) with column schema, row counts, and originating-source provenance.

brapi_dataframe_drop

Opt-in via BRAPICANVASDROPENABLED=true. Drop a dataframe by name. Idempotent. Dataframes also expire via TTL when left unmanaged.

brapi_dataframe_export

Opt-in via BRAPIEXPORTDIR=<path>, stdio-only. Export a dataframe to disk (CSV / Parquet / JSON) under the configured directory and return the absolute path for the human to open. Optional columns projection or sql filter materializes a derived table for the export, dropped after.

brapi_dataframe_query

SELECT SQL across in-memory dataframes (DuckDB-backed). Spilled find rows auto-register as df<uuid>. Read-only — multi-statement, non-SELECT, file-reads, and exports rejected. Returns typed columns ({ name, type }[]).

brapi_describe_filters

Static BrAPI v2.1 filter catalog for any endpoint — powers extraFilters discovery on every find tool.

brapi_export_genotype_matrix

Export genotype calls for a variant set as a germplasm × variant canvas dataframe; also serializes to VCF-lite or PLINK .ped/.map text. Distinct-variant columns bounded by BRAPIGENOTYPEMATRIXMAXCOLUMNS (default 10k, max 500k).

brapi_find_genotype_calls

Pull genotype calls via async-search polling. Upstream pull bounded by BRAPIGENOTYPECALLSMAXPULL (default 100k, max 500k).

brapi_find_germplasm

Find germplasm by name, synonym, accession, PUI, crop, or free-text. Distributions + dataframe spillover.

brapi_find_images

Filter image metadata by unit / study / ontology / MIME type. Bytes via brapigetimage.

brapi_find_locations

Find research stations by country (ISO alpha-3 code, or English country name resolved client-side) / type / abbreviation, with optional client-side bbox filter.

brapi_find_observations

Pull observation records by study / germplasm / variable / season / unit / timestamp. Dataframe spillover.

brapi_find_studies

Find studies by crop / trial type / season / location / program. Distributions + dataframe spillover.

brapi_find_variables

Find observation variables by name / class / ontology / free-text; ranked client-side via OntologyResolver when text is supplied.

brapi_find_variants

Find variant records by variant set, reference, or genomic region (1-based inclusive / exclusive).

brapi_germplasm_performance

Per-variable performance aggregates (n, mean, median, sd, min, max, studyCount) for a single germplasm across all studies where it has observations.

brapi_get_germplasm

Fetch a germplasm with attributes, direct parents, and companion counts (studies, parents, descendants).

brapi_get_image

Fetch image bytes for up to 5 imageDbIds inline as type: image blocks. Prefers /imagecontent, falls back to imageURL.

brapi_get_study

Fetch a study with program / trial / location FKs resolved and companion counts (observations, units, variables).

brapi_raw_get

Passthrough to any BrAPI GET /{path} not covered by curated tools. Emits a routing nudge when one applies.

brapi_raw_search

Passthrough to any POST /search/{noun} with async polling handled transparently. Same nudge pattern.

brapi_server_info

Re-fetch the orientation envelope for a registered alias — identity, auth, capabilities, content counts, attribution, notes.

brapi_submit_observations

Two-phase observation write — mode: preview validates; mode: apply elicits confirmation, then fans POST + PUT in parallel. Additive only — no destructive deletion.

brapi_walk_pedigree

BFS-walk ancestry / descendancy as a deduplicated DAG with cycle detection, depth limits, and traversal stats.