Which databases are supported by the BioServices skill?

It supports over 40 services, including major biological resources like UniProt, KEGG, ChEMBL, PubChem, Reactome, and QuickGO.

Can I use this skill to map IDs between different databases?

Yes, the skill provides dedicated methods for mapping identifiers between UniProt, KEGG, Ensembl, PDB, RefSeq, and many other databases.

How does it handle different web protocols?

BioServices transparently manages both REST and SOAP/WSDL protocols, providing a consistent Pythonic interface regardless of the underlying service's architecture.

Does BioServices support sequence alignment and BLAST?

Yes, it includes built-in wrappers for running NCBI BLAST searches and sequence alignments using tools like MUSCLE.

BioServices Bioinformatics Toolkit

Name: BioServices Bioinformatics Toolkit
Author: plurigrid

byplurigrid

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データサイエンスとML

Provides programmatic access to over 40 bioinformatics web services for biological data retrieval, identifier mapping, and pathway analysis.

BioServices is a comprehensive Python integration skill that streamlines access to major biological databases like UniProt, KEGG, ChEMBL, and NCBI. It allows researchers and developers to perform complex multi-database workflows—such as mapping protein IDs across different repositories, executing BLAST sequence searches, and extracting metabolic pathway interactions—through a unified API. By abstracting the complexities of REST and SOAP protocols, it enables seamless data science pipelines for genomics, proteomics, and cheminformatics directly within a Claude-assisted coding environment.

主な機能

018 GitHub stars

02Unified access to 40+ bioinformatics services (UniProt, KEGG, ChEMBL, etc.)

03Asynchronous sequence similarity searching with NCBI BLAST integration

04Programmatic pathway discovery and network extraction capabilities

05Automated identifier mapping between disparate biological databases

06Transparent handling of both REST and SOAP/WSDL web protocols

ユースケース

01Extracting and analyzing metabolic pathway networks for systems biology

02Mapping compound identifiers across chemical databases for drug discovery

03Automating protein characterization and functional annotation pipelines

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add plurigrid/asi bioservices

For use in Claude.ai and ChatGPT

Download Skill