Question: Best method to do clustering (sub-group) single cell RNA-Seq data?
gravatar for sudha
7 months ago by
sudha20 wrote:

Hi Dear one,

I have 50 single cell RNA seq data of neuronal cells, I want to find the differential gene expression between the sub groups!

As for now I have calculated expression counts (in gene and isoform level) using RSEM ( I am planning to use EBSeq for differential gene expression), Can anyone guide me to do subgrouping (clustering) from this RSEM output? or any other best way?

thanks in advance

rna-seq rna • 359 views
ADD COMMENTlink modified 8 weeks ago by ZZzzzzhong10 • written 7 months ago by sudha20
gravatar for ZZzzzzhong
8 weeks ago by
ZZzzzzhong10 wrote:

you can try Seurat( only need the genecount matrix,then you could do clustering ,DE,and so on

ADD COMMENTlink written 8 weeks ago by ZZzzzzhong10
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