Question about STARsolo and detected genes in SMART-seq

cellgeni / STARsolo

wrapper scripts for convenient STARsolo processing of 10X and other scRNA-seq

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Question about STARsolo and detected genes in SMART-seq #5

Closed jwweii closed 1 year ago

jwweii commented 1 year ago

I am currently using STARsolo to analyze SMART-seq2 data and I have a question regarding the definition of detected genes. I was wondering if STARsolo defines detected genes in SMART-seq based on read counts? If so, what is the minimum threshold used to consider a gene as detected?

jwweii commented 1 year ago

I've got the answer. The threshold is 1 (https://github.com/alexdobin/STAR/issues/1858#issuecomment-1550165686).