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Differential gene expression for single-cell data using pseudo-bulk counts with edgeR

This workflow uses the decoupler tool in Galaxy to generate pseudobulk counts from an annotated AnnData file obtained from scRNA-seq analysis. Following the pseudobulk step, differential expression genes (DEG) are calculated using the edgeR tool. The workflow also includes data sanitation steps to ensure smooth operation of edgeR and minimizing potential issues. Additionally, a Volcano plot tool is used to visualize the results after the DEG analysis.

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This workflows is part ...

Type: Galaxy

Creators: None

Submitter: Helena Rasche

Created: 17th Feb 2025 at 13:07

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