Is gget suitable for large-scale sequence alignment?

Absolutely. gget supports several alignment tools, including Muscle5 for multiple sequences and DIAMOND for high-speed local alignments of large datasets.

Can I use gget for protein structure prediction?

Yes, gget includes a specialized module for AlphaFold2 that allows you to predict 3D protein structures from amino acid sequences and generate visualizations.

How does gget handle database structure changes?

The gget modules are automatically tested on a biweekly basis and updated by the maintainers to ensure compatibility with any changes in the underlying genomic database structures.

What databases can I access with gget?

gget provides access to over 20 databases, including Ensembl, UniProt, AlphaFold, ARCHS4, Enrichr, OpenTargets, COSMIC, and the RCSB Protein Data Bank.

Bioinformatics & Genomic Data (gget)

Name: Bioinformatics & Genomic Data (gget)
Author: K-Dense-AI

byK-Dense-AI

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2,188

数据科学与机器学习

Provides unified, rapid access to over 20 genomic databases and bioinformatics analysis tools for DNA and protein research.

关于

gget is a comprehensive toolkit designed to streamline bioinformatics workflows by providing a consistent interface for querying genomic databases and performing complex sequence analysis. It integrates access to major repositories like Ensembl, UniProt, and AlphaFold, enabling researchers to retrieve gene metadata, download reference genomes, align sequences with Muscle5 or DIAMOND, and predict 3D protein structures directly. By wrapping diverse APIs into a single toolset, gget simplifies the transition from raw biological data to actionable insights within a Claude-enhanced development or research environment.

主要功能

Single-cell RNA-seq and tissue expression analysis via ARCHS4 and CELLxGENE
2,188 GitHub stars
3D protein structure prediction and visualization using AlphaFold2
Automated reference genome metadata and bulk download management
Unified access to 20+ genomic databases including Ensembl, UniProt, and PDB
Rapid sequence alignment via BLAST, BLAT, Muscle5, and DIAMOND

使用场景

Performing rapid local and remote sequence alignments for protein homology research
Automating the retrieval of gene metadata and FASTA sequences for large-scale genomic studies
Predicting and visualizing 3D protein structures for structural biology analysis

关于

主要功能

Single-cell RNA-seq and tissue expression analysis via ARCHS4 and CELLxGENE
2,188 GitHub stars
3D protein structure prediction and visualization using AlphaFold2
Automated reference genome metadata and bulk download management
Unified access to 20+ genomic databases including Ensembl, UniProt, and PDB
Rapid sequence alignment via BLAST, BLAT, Muscle5, and DIAMOND

使用场景

Performing rapid local and remote sequence alignments for protein homology research
Automating the retrieval of gene metadata and FASTA sequences for large-scale genomic studies
Predicting and visualizing 3D protein structures for structural biology analysis