Query genomic databases and sequences
scientific-pkg-ggetskillsetup L2★0
Sheshiyer/skill-clusters ↗What it does
Query genomic reference databases for sequences and metadata
Best for
First-pass genomic lookups that need reproducible logs and standard database access before committing to local BLAST pipelines.
Inputs
- · gene names or Ensembl IDs
- · species/assembly
- · database module
Outputs
- · gene metadata JSON
- · FASTA sequences
- · reference genome links
Requires
- · gget Python package
- · Ensembl API
- · BLAST/BLAT backends
Preconditions
Python venv with gget installed; gene identifiers normalized
Failure modes
- · outdated gget version missing modules
- · database schema changes
- · assembly mismatch
Trust signals
- · reproducibility log template
- · module version tracking
- · upstream docs reference