bioinformatics commands

ClawBio/ClawBio

Command

Run a ClawBio bioinformatics analysis on user-provided genetic data.

ClawBio/ClawBio

Command

Build a new ClawBio skill from the official template with full conformance enforcement.

ClawBio/ClawBio

Command

Run a ClawBio skill demo with built-in sample data.

ammawla/encode-toolkit

Command

List, search, and inspect ENCODE files by format, type, and assembly.

ammawla/encode-toolkit

Command

Check if two ENCODE experiments are compatible for combined analysis.

ammawla/encode-toolkit

Command

Cross-reference ENCODE data with PubMed, GEO, ClinicalTrials, and bioRxiv.

HERRY423/CellTypePilot

Command

Annotate single-cell clusters with CellTypePilot — evidence-based cell-type labeling.

HERRY423/CellTypePilot

Command

Deep-review a specific cluster with CellTypePilot's Annotation Critic.

HERRY423/CellTypePilot

Command

Check CellTypePilot environment — dependencies, capabilities, MCP status.

yojiro253-del/BioForge

Command

Run a synthetic-biology research workflow - find papers, then extract organisms, genes, and methods.

zamushwani/biomedical-ai-skills

Command Claude Code

Spatial transcriptomics analysis: loading, spatial QC, spatially variable genes, deconvolution, domains. Use for Visium, Xenium, MERSCOPE, or CosMx data.

zamushwani/biomedical-ai-skills

Command Claude Code

Annotate and clinically interpret variants from a VCF. Use when the user has variant calls and wants functional annotation, ACMG classification, oncogenicity, or clinical tiers.

zamushwani/biomedical-ai-skills

Command Claude Code

Pathway enrichment on a ranked gene list (GSEA or ORA). Use when the user asks which pathways are enriched, wants GSEA/fgsea, or has DE results to interpret biologically.