scRNA-seq, filter low expressed genes based on RPKM value
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2.5 years ago
chipolino ▴ 70

Hi everyone!

I analyze scRNA-seq data set from GEO, and it already comes in RPKM values for each gene in each cell. My aim is to do co-expression analysis with GENIE3, and then do differential expression analysis. So my question is how do you filter low-expressed genes by RPKM values and how do you take number of cells (in which gene is expressed) into account?

Thank you!

scRNA-seq expression filtering rpkm • 980 views
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