Description
gget is an agent skill from the ECC collection by affaan-m, listed on skills.sh. It uses the gget command-line tool and Python package for quick bioinformatics lookups across genomic reference databases. Its listed uses include finding Ensembl IDs, gene metadata, transcript details and sequences, running quick BLAST or BLAT searches without building a local pipeline, fetching reference genome links and annotations, and querying protein structure, pathway, cancer, expression and disease-association modules through one interface. It is intended for a first-pass evidence log that is reproducible, before the work moves to heavier tools such as Biopython, Snakemake, Nextflow, BLAST+ or database-specific clients. The skill says not to use gget for regulated clinical interpretation, high-throughput production pipelines, or work that needs fine control over database versions and local indexes. A skill is a SKILL.md file of instructions that an AI agent loads when a task calls for it. It is free and open source, and the skills.sh listing shows all three security audits passing.…
Highlights
- Ensembl IDs, genes and sequences
- Quick BLAST and BLAT lookups
- Protein, pathway and disease queries
- Reproducible first-pass evidence log
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gget FAQ
What does the gget skill do?
It runs quick genomic database lookups with the gget CLI or Python package, such as gene metadata, sequences and BLAST searches.
When should I not use it?
The skill advises against it for regulated clinical interpretation, high-throughput production pipelines, or work needing control over database versions and local indexes.
What tools come next after gget?
The listing names Biopython, Snakemake, Nextflow, BLAST+ and database-specific clients for heavier work.
How do I install it?
Run: npx skills add https://github.com/affaan-m/ecc --skill gget
Is it free?
Yes. It is free and open source.
What are the best gget alternatives?
Popular alternatives to gget include biopython, gget and gtars. See all gget alternatives