openscientist

Genomics and transcriptomics analysis strategies

Reference of available Phenix commands for structural biology analysis

Interpret statistical results and decide what to do next

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 the KBase/BERDL Datalake via the MCP REST API. Use this when users want to explore KBase databases, list tables, get schemas, sample data, or run SQL queries against the KBase data lake. Triggers on mentions of KBase, BERDL, or requests to query biological/microbiome data stored in KBase.

Statistical analysis strategies and data exploration techniques

Metabolomics-specific analysis strategies and domain knowledge

Generate testable hypotheses from data patterns and literature

Decide what to investigate next when you have multiple options

Decide when to stop investigating and prepare final report