alterlab-gget
CommunityUnified CLI & Python access to 20+ bio databases.
Data & Analytics#bioinformatics#databases#enrichment#gget#sequence-retrieval#gene-search#open targets
AuthorAlterLab-IEU
Version1.0.0
Installs0
System Documentation
What problem does it solve?
gget provides unified access to multiple genomic databases via a single CLI and Python interface, enabling researchers to perform fast queries, retrieve metadata, and run analyses without manual data gathering.
Core Features & Use Cases
- Gene discovery & metadata: search Ensembl, UniProt, and NCBI for genes and descriptions.
- Sequence retrieval & analysis: fetch nucleotide/protein sequences, perform BLAST/BLAT, and align sequences.
- Expression, enrichment & disease data: access ARCHS4 tissue profiles, OpenTargets disease associations, Enrichr pathways, and cBioPortal data.
- Use Case: A researcher identifies candidate genes, retrieves sequences, expression patterns, and enrichment results in a single workflow.
Quick Start
Install gget and begin by searching for a gene, then fetch metadata and sequences with simple commands.
Dependency Matrix
Required Modules
ggetpandas
Components
scriptsreferences
💻 Claude Code Installation
Recommended: Let Claude install automatically. Simply copy and paste the text below to Claude Code.
Please help me install this Skill: Name: alterlab-gget Download link: https://github.com/AlterLab-IEU/AlterLab-Academic-Skills/archive/main.zip#alterlab-gget Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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