Bio foundation models
Helical lets you run biological foundation models on your own single-cell data, from the chat you're already in. Upload an .h5ad dataset into your private Helical project, pick a model — scGPT, Geneformer, TranscriptFormer, Cell2Sentence or Nicheformer — and compute embeddings on Helical's GPUs. More
MCP connector Server URL https://api.helical.bio/mcpCopy Login OAuth Tools Reads data11 _ _ _ _ _ _ _ _ _ _ _
Changes data8 _ _ _ _ _ _ _ _
Deletes or can't be undone2 _ _
Skills 5 in the ChatGPT listing
Check Credits Read the user's Helical credit balance, tell them what a run will cost and when they are actually charged, and explain a run refused for insufficient credit. Compute Embeddings Compute cell embeddings for a single-cell dataset with a Helical foundation model, then download the outputs. Fine-tune a Model Fine-tune a Helical foundation model on a labelled single-cell dataset. In-silico Perturbation Run an in-silico gene knockout, knockdown or overexpression screen with Helical foundation models by editing the expression matrix locally, then embedding the perturbed cells on the platform. Reconnect Helical Get a Helical connection working when it is not: the plugin was installed but never connected, a tool call came back with an authorization link, or a connection that worked before is now refused. 
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