Agent-Skills.md

Agent Skills: UCSC Genome Browser Querier Skill

UCSC Genome Browser query skill for genome annotation retrieval and track data access

bioinformaticsID: a5c-ai/babysitter/ucsc-genome-browser-querier

Repository

a5c-ai/babysitter
a5c-aiLicense: MIT
244

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pnpm dlx add-skill https://github.com/a5c-ai/babysitter/tree/HEAD/plugins/babysitter/skills/babysit/process/specializations/domains/science/bioinformatics/skills/ucsc-genome-browser-querier

Skill Files

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plugins/babysitter/skills/babysit/process/specializations/domains/science/bioinformatics/skills/ucsc-genome-browser-querier/SKILL.md

Skill Metadata

Name
ucsc-genome-browser-querier
Description
UCSC Genome Browser query skill for genome annotation retrieval and track data access

UCSC Genome Browser Querier Skill

Purpose

Provide UCSC Genome Browser queries for genome annotation retrieval and track data access.

Capabilities

  • Track data retrieval
  • Custom track upload
  • Genome annotation queries
  • Conservation score extraction
  • Table browser queries
  • bigWig/bigBed handling

Usage Guidelines

  • Query relevant annotation tracks
  • Upload custom data for visualization
  • Extract conservation scores for analysis
  • Use Table Browser for data extraction
  • Handle bigWig/bigBed formats efficiently
  • Document genome assembly versions

Dependencies

  • UCSC API
  • kent utilities
  • pyBigWig

Process Integration

  • Whole Genome Sequencing Pipeline (wgs-analysis-pipeline)
  • RNA-seq Differential Expression Analysis (rnaseq-differential-expression)