How does it handle different species?

The skill provides specific guidance on nomenclature for human (HGNC) and mouse gene symbols to ensure accurate data interpretation and adherence to publication standards.

Can this skill help with biological pathway analysis?

Yes, it provides implementation patterns for Gene Ontology (GO) and KEGG pathway enrichment using statistical tests like Fisher's Exact Test.

Does it handle multiple testing correction?

Yes, the included workflows use the Benjamini-Hochberg FDR method to adjust p-values, ensuring statistically sound findings across thousands of genes.

What types of genomic data does this skill support?

It supports RNA-seq counts, microarray intensities, and single-cell RNA-seq expression data, providing normalization and analysis strategies for each.

Genomics & Transcriptomics Analysis

Name: Genomics & Transcriptomics Analysis
Author: justaddcoffee

byjustaddcoffee

0•

Data Science & ML

Provides strategies, implementation patterns, and workflows for genomics and transcriptomics data analysis.

This skill equips Claude with specialized knowledge for biological data science, specifically focusing on gene expression analysis and transcriptomics. It provides robust patterns for processing RNA-seq and microarray data, performing differential expression analysis using Python, and conducting pathway enrichment using GO and KEGG databases. It also includes guidance on gene nomenclature, visualization techniques like volcano plots, and multi-omic integration, making it an essential tool for researchers and bioinformaticians using Claude Code for scientific discovery.

Key Features

010 GitHub stars

02Pathway and Gene Set Enrichment Analysis (GSEA) implementation

03Automated differential gene expression (DGE) analysis workflows

04Cross-species gene nomenclature and symbol verification

05Visualization tools for biological data including volcano plots

06Co-expression network construction and community detection

Use Cases

01Integrating transcriptomic results with metabolomic or proteomic datasets

02Interpreting biological pathways affected by experimental conditions

03Analyzing RNA-seq count data to identify significant biomarkers

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add justaddcoffee/open-science-skills genomics

For use in Claude.ai and ChatGPT

Download Skill