cmungall

Skills for enriching study entries with NCBI BioProject metadata. Use this when you see studies with bioproject_ids (PRJNA...) that could be enriched with sample counts, publication DOIs, or organism information.

Skills for querying microbiome data in NMDC. Use this proactively for anything related to microbes and microbiomes. Use for anything involving NMDC IDs (e.g. prefixed `nmdc:`)

Use the tmux-pilot `tp` CLI to orchestrate tmux sessions for AI coding agents. Use when the user wants to start, inspect, attach to, send instructions to, resume, refresh PR metadata for, or clean up Codex, Claude Code, Pi, or generic tmux-backed task sessions and git worktrees.

Skills for querying the JGI Dremio Lakehouse containing GOLD and IMG genomics databases. Use this when users want to explore JGI databases, query GOLD (Genomes OnLine Database), IMG (Integrated Microbial Genomes), or run SQL queries against JGI genomics data. Triggers on mentions of JGI, GOLD database, IMG database, genome metadata, or JGI lakehouse queries.

Skills for querying Gene Ontology annotation databases in DuckDB format. Use this for queries about GO annotations, genes, terms, evidence codes, or taxonomic relationships in GO-DB databases (db/*.ddb files). Particularly useful for hierarchical queries using closure tables to find genes annotated to terms and their descendants.

Skills for using gog (gogcli), a CLI for Google APIs (Gmail, Calendar, Tasks, Drive, Docs, Sheets, Contacts, Chat). Use this when the user asks to read or summarize emails/inbox, check calendar, list tasks, add a task, read a google doc, check drive, or any Google Workspace operation from the command line. Also use when working on GitHub Actions workflows that call gog.