Notifications You must be signed in to change notification settings Here, you will find the main steps to reproduce the correction method implemented in "DESeq2-MultiBatch: Batch Correction for ...

Hi Seurat Team, I was wondering what's the way you guys would recommend doing DE analysis using DESeq2. From the Choudhary and Satija paper (Fig S23), DESeq2 was run using raw counts or sctransform ...

Bootstrapping analysis coupled with DESeq2 identifies SNc or VTA stable genes from a cohort of 12 human subjects. (A) Histogram of DEG frequency through iterative bootstrapping.

Often the goal of a RNA-seq type experiment is to find differentially expressed genes. Below I give guidelines for calling differential expression. The major steps for differeatal expression are to ...

The present article highlights the similarities between three normalization methods: TMM from edgeR R package, RLE from DESeq2 R package, and MRN. Both TMM and DESeq2 are widely used for differential ...