xCell for integrated two scRNAseq data.

dviraran / SingleR

SingleR: Single-cell RNA-seq cell types Recognition (legacy version)

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xCell for integrated two scRNAseq data. #98

Open akhst7 opened 5 years ago

akhst7 commented 5 years ago

Hi,

Seurat 3 comes with a handy FindIntegrationAnchors and IntegrateData to compare differences and similarities between two scRNAseq data sets. Is it possible to create xCell object for this type of Seurat object ?

Thanks.

dviraran commented 5 years ago

Hi,

You mean SingleR, right? SingleR uses the expression levels, so you can use any data you want. Just use as.matrix(combined@assays$RNA@data) as the counts input.