pseudobulkdeg

Features and purpose

Performs pseudo-bulk differential gene expression analysis using DESeq2 or edgeR. Aggregates single-cell counts to sample-level pseudo-bulk data, then identifies differentially expressed genes between conditions while accounting for biological replicates. Supports complex experimental designs including batch effects, paired samples, and interaction terms.

Quick start

Follow the repository instructions for this skill and your agent. Review the files and dependencies before adding it to your workflow.