Can I convert identifiers between different databases?

Yes, one of the core capabilities is identifier mapping, allowing you to convert between UniProtKB, KEGG, Ensembl, RefSeq, and many other biological ID formats.

Does this skill support sequence alignment?

Yes, it includes wrappers for NCBI BLAST and MUSCLE, allowing you to run sequence similarity searches and alignments programmatically.

How does BioServices handle data formats like XML or JSON?

BioServices transparently handles both REST and SOAP protocols, providing the tools to parse results into Python-friendly formats like dictionaries, TSV, or XML.

What databases are supported by this skill?

BioServices provides access to over 40 services, including major repositories like UniProt, KEGG, ChEMBL, PubChem, Reactome, PDB, and QuickGO.

Bioinformatics Services (BioServices)

Name: Bioinformatics Services (BioServices)
Author: ovachiever

byovachiever

•

Data Science & ML

Provides programmatic access to over 40 bioinformatics web services and databases for streamlined biological data retrieval and analysis.

The BioServices skill integrates a comprehensive Python framework into Claude Code, allowing for unified programmatic access to major biological databases such as UniProt, KEGG, ChEMBL, and PubChem. It simplifies complex bioinformatics workflows by providing tools for protein sequence analysis, metabolic pathway mapping, compound searches, and cross-database identifier conversion. This skill is particularly useful for researchers and computational biologists who need to automate data collection and integration from disparate biological resources within a single environment.

Key Features

01Asynchronous execution and monitoring of NCBI BLAST sequence similarity searches.

02Unified API access to 40+ bioinformatics services including UniProt, KEGG, and Reactome.

03Detailed metabolic pathway discovery and protein-protein interaction network extraction.

04Robust identifier mapping between diverse biological databases (e.g., KEGG to UniProt).

055 GitHub stars

06Comprehensive chemical compound searching across ChEBI, ChEMBL, and PubChem.

Use Cases

01Cross-referencing chemical compounds across multiple databases to aggregate property data.

02Mapping gene lists to metabolic pathways to identify biological significance.

03Automating the retrieval of protein sequences and functional annotations for batch analysis.

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add ovachiever/droid-tings bioservices

For use in Claude.ai and ChatGPT

Download Skill