Enter the body of text here Instead of raw count data, would it be proper to input the normalized RNAseq count data into DESeq2? The TCGA RNASeqV2 data is downloaded from cbioportal. From the reference, it seems they normalized "raw_count" (expected count from RSEM) values by the 75th percentile of the column (after removing zeros) and multiply that by 1000. Would you see any problems by doing that? Thanks for your comments!
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# include your problematic code here with any corresponding output # please also include the results of running the following in an R session sessionInfo( )