Gget

---
name: gget
description: "Fast CLI/Python queries to 20+ bioinformatics databases. Use for quick lookups: gene info, BLAST/BLAT, viral sequence downloads, AlphaFold structures, enrichment analysis, OpenTargets, COSMIC, CELLxGENE, and 8cube mouse specificity/expression data. Best for interactive exploration and simple queries. For batch processing or advanced BLAST use biopython; for multi-database Python workflows use bioservices."
license: BSD-2-Clause license
allowed-tools:
  - Read
  - Write
  - Edit
  - Bash
compatibility: Requires Python >=3.8 and gget 0.30.5-compatible APIs. Optional setup modules may install scientific dependencies that lag the newest Python releases; use Python 3.9 or 3.10 if `gget setup cellxgene` or `gget setup alphafold` fails.
metadata: {"version": "1.1", "skill-author": "K-Dense Inc."}
---

# gget

## Overview

gget is a command-line bioinformatics tool and Python package providing unified access to 20+ genomic databases and analysis methods. Query gene information, sequence analysis, protein structures, viral sequences, expression data, disease associations, and mouse tissue/cell specificity metrics through a consistent interface. Most gget modules work both as command-line tools and as Python functions.

**Important**: The databases queried by gget are continuously updated, which sometimes changes their structure. Guidance here targets gget 0.30.5 (PyPI current as of 2026-06-07). For reproducible work, pin `gget==0.30.5`; for broken upstream database adapters, update gget after checking release notes.

## Installation

Install gget in a clean virtual environment to avoid conflicts:
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