search

wenweixiong / MARVEL

38 stars 9 forks source link

Seurat object integration #19

Closed LacquerHed closed 11 months ago

LacquerHed commented 11 months ago

Hi, thank you for this great package! I am wondering if there is an easy way or wrapper for using a Seurat object in the MARVEL analysis?

wenweixiong commented 11 months ago

Hi, unfortunately MARVEL doesn't have functions for Seurat object. But you may perform your usual cell QC, gene expression normalisation, and clustering analysis, and then export the relevant files into MARVEL for splicing and gene expression analysis, e.g., raw gene count matrix, normalised gene expression matrix, and UMAP/tSNE coordinates.