I am working with RNA-seq data and normalizing with Cufflinks' Cuffnorm, whose output is count and FPKM matrices. since I'm comparing gene expression between samples, I wanted to use TPM rather than FPKM. I was wondering about few issues: 1- Can I calculate TPM values directly from the FPKM values of Cuffnorm? 2- Can I calculate TPM from Cuffnorm's count table? Is it raw enough? 3- What is unique in Cuffnorm's FPKM vs. regular FPKM?