Visualize gene expression by tissue and stage with help of expression charts. Easily see which expressions are up- or down-regulated.

Visualize relation and linkages between the proteins associated with a particular gene.

Generates a scaffold for BlueGenes tools

Client library for communication with InterMine web-services

Visualize gene and protein interaction networks using [cytoscape.js](http://js.cytoscape.org/).

UI widgets for displaying query results in interactive tables

A deep deletion module for node (like `rm -rf`)

JavaScript build tool, similar to Make or Rake

CLI tool for Angular

Visualize expression data using a combination of box and swarm plots. Both disease and organism expressions are shown side by side along with a five pointer summary of the dataset. Hover over the plot for more information.

Node.js native addon build tool

Visualize gene ontology terms by their amount of matches for items in a list. Allows you to filter and adjust the enrichment results.

Detect if code is running in an AI agent or automated development environment

Unified LLM API with automatic model discovery and provider configuration

Visualize protein expression in organ tissue with a heatmap showing overall and cell specific antibody staining values.

Bluegenes Protein Tissue Localisation is a tool made for [BlueGenes](http://bluegenes.apps.intermine.org) following BlueGenes Tool API. Add more description of your tool here! :)

Model-facing ask_user_question tool over the ctx.userInteraction seam

Tool-call timeout policy: a tools/execute wrapper that arms a per-tool deadline on exec.signal and returns TOOL_TIMEOUT when it wins

Model-facing web tools (web_search, web_fetch) over the DeepSeek Harness web capability seam (ctx.web)

Repeat-tool-call guard plugin: advisory reminders when an agent loops on identical tool calls