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lib-gget

Query over 20 bioinformatics databases via command-line and Python interfaces.

Updated Mar 13, 2026
Search Tags:#bioinformatics#protein structure#genomics#sequence analysis#data retrieval#gene expression
One-click install
npx skills add https://github.com/biomaps-infra/blender-opencode --skill lib-gget
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: lib-gget
Source: https://github.com/biomaps-infra/blender-opencode/tree/main/.opencode/skills/lib-gget
Command: npx skills add https://github.com/biomaps-infra/blender-opencode --skill lib-gget

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill includes scripts (resource) and references (resource) components.

What problem does it solve?

This Skill simplifies complex bioinformatics data retrieval and analysis by providing a unified interface to over 20 genomic databases, eliminating the need to learn multiple APIs or tools.

Core Features & Use Cases

  • Rapid Data Lookup: Quickly find gene information, protein structures, sequence data, and more.
  • Sequence Analysis: Perform BLAST, BLAT, and multiple sequence alignments.
  • Expression & Disease Data: Query gene expression atlases and disease association databases.
  • Use Case: A researcher needs to find the Ensembl ID for a gene, retrieve its protein sequence, and check its association with a specific disease. This Skill can perform all these tasks with simple commands.

Quick Start

Use the lib-gget skill to search for human gene information related to 'BRCA1'.

Frequently Asked Questions about lib-gget

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I query multiple bioinformatics databases like Ensembl and UniProt without learning different APIs?▼

Querying multiple bioinformatics databases without learning different APIs is possible using a unified command-line and Python interface. This tool provides access to over 20 databases, including Ensembl and UniProt, simplifying data retrieval into a single workflow.

What's the best way to retrieve gene information and protein structures in batch?▼

The best way to retrieve gene information and protein structures in batch is using a unified interface that supports querying databases like RCSB PDB and NCBI. It facilitates batch processing to integrate smoothly into larger bioinformatics pipelines.

Can I perform sequence analysis and BLAST searches directly within a Python pipeline?▼

You can perform sequence analysis and BLAST searches directly within a Python pipeline. The tool provides a Python interface supporting BLAST, BLAT, and multiple sequence alignments alongside gene information retrieval.

Does this tool support gene expression data lookup and disease association queries?▼

Yes, this tool supports gene expression data lookup and disease association queries. It interfaces with expression atlases like ARCHS4 and disease association databases like OpenTargets to retrieve relevant biological data.

How do I find the Ensembl ID for a gene and check its disease association?▼

To find an Ensembl ID for a gene and check its disease association, use simple commands within this interface. It queries Ensembl for IDs and OpenTargets for disease associations, streamlining multi-database lookups.

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