Which method works best for analysing ONE sample of scRNA-seq data?

Question

[solarchan7]

Hello, I currently have a single-cell RNA-seq (scRNA-seq) data of a single person (sample) and i want to perform DE analysis. However, when I run the DESeq() in the DESeq2 package, it shows an error about only one sample is not allowed. What are some alternative to this? Thank you in adcance.

[ATpoint]

What do you want to compare?

Answer 1

[fracarb8]

DESEq2 is design to analyse bulk RNA-Seq. For single-cell have a look at seurat, monocle3 or scanpy. I am sure there are more packages available, but these are the one I used and known.