bulq RNA-seq nomalization method?

wuaipinglab / ImmuCC

Cell-Centric View of Tissue Transcriptome Measuring Cellular Compositions of Immune Microenvironment From Mouse RNA-Seq Data.

http://218.4.234.74:3200/immune/

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bulq RNA-seq nomalization method? #14

Open imrankhan27 opened 2 years ago

imrankhan27 commented 2 years ago

Is there a specific requirement related to the normalization method for bulqRNA-seq data in immuCC? like TPM, FPKM, RPKM, or just count matrix of each gene. Thank you!

chenziyi commented 2 years ago

As described in our paper and github, the quartile normalization was used here. Sorry, I have not try it on other normalization methods.