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Targeted differential expression analysis with enrichment.

Data & Analytics#visualization#enrichment#markers#scRNA-seq#differential-expression#seurat
Authorpwwang
Version1.0.0
Installs0

System Documentation

What problem does it solve?

Targeted differential expression analysis within single-cell data by wrapping Seurat's FindMarkers for custom group comparisons, enabling researchers to move beyond cluster-vs-all paradigms and explore biologically meaningful contrasts.

Core Features & Use Cases

  • Custom group comparisons across metadata columns (e.g., cluster c1 vs c3, condition across cell types)
  • Condition effects and multi-sample designs within defined populations
  • Automatic pathway and gene-set enrichment analyses on significant markers
  • Generated visualizations to interpret markers and enrichment results

Quick Start

Load a Seurat object with the grouping metadata and run MarkersFinder to obtain DE markers and enrichment results.

Dependency Matrix

Required Modules

None required

Components

Standard package

💻 Claude Code Installation

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Please help me install this Skill:
Name: markersfinder
Download link: https://github.com/pwwang/immunopipe/archive/main.zip#markersfinder

Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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