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bioservices

Access over 40 bioinformatics web services through a unified Python interface.

1|Updated Jan 14, 2026
Search Tags:#api#python#bioinformatics#pathway analysis#sequence analysis#data retrieval
One-click install
npx skills add https://github.com/Sologa/codex-pipeline --skill bioservices-sologa
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: bioservices
Source: https://github.com/Sologa/codex-pipeline/tree/main/.codex/skills/bioservices
Command: npx skills add https://github.com/Sologa/codex-pipeline --skill bioservices-sologa

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 single, consistent Python interface to over 40 different web services and databases.

Core Features & Use Cases

  • Multi-Database Queries: Seamlessly query UniProt, KEGG, ChEMBL, Reactome, and more within a single workflow.
  • Identifier Mapping: Convert IDs between various biological databases (e.g., UniProt to KEGG).
  • Sequence Analysis: Perform BLAST searches and retrieve protein sequences.
  • Pathway Analysis: Discover and analyze metabolic pathways and protein interactions.
  • Use Case: A researcher needs to find all proteins interacting with a specific gene, map their IDs across databases, and identify associated metabolic pathways. This Skill can automate that entire process.

Quick Start

Use the bioservices skill to find pathways associated with the human gene ZAP70.

Frequently Asked Questions about bioservices

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

FAQPage Schema
How do I query multiple bioinformatics databases like UniProt and KEGG in Python?▼

You can query multiple bioinformatics databases in Python using a unified interface that connects to over 40 web services. This enables seamless cross-database querying and data retrieval within a single workflow.

What is the best way to map biological identifiers between databases using Python?▼

The best way to map biological identifiers is by using a unified Python interface that converts IDs across various databases like UniProt and KEGG. This automates identifier translation for cross-database analysis.

Can I perform BLAST sequence analysis and pathway discovery in a single Python script?▼

Yes, you can perform BLAST sequence analysis and pathway discovery in a single Python script. A unified bioinformatics interface enables programmatic access to sequence similarity searching and metabolic pathway analysis.

Does this Python bioinformatics interface work with BioPython and Pandas?▼

Yes, this Python bioinformatics interface supports integration with tools like BioPython and Pandas. This compatibility allows you to perform advanced data manipulation and visualization on retrieved biological data.

How do I automate finding protein interactions and metabolic pathways for a specific gene?▼

You can automate finding protein interactions and metabolic pathways for a specific gene by querying a unified Python interface. It retrieves biological data, maps IDs across databases, and identifies associated pathways programmatically.

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