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Log2(rpkm 1)

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Log2(rpkm 1)

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With RPKM or FPKM, the sum of normalized reads in each sample can be different. Thus, if the RPKM for gene A in Sample 1 is 3.33 and the RPKM in Sample 2 is 3.33, I would not know if the same proportion of reads in Sample 1 mapped to gene A as in Sample 2.Method 1: Find RPKM values by using gene count data and the "rpkm" function. Compare the RPKM calculation from method 1 to the cyclic loess normalized values; Number of DE genes with RPKM method #1; Method 2: Find RPKM values by adjusting the normalized CPM counts by gene lengths