Are Fpkm And Rpkm Values Equivalent?

Question

[raj.gzra]

hi everyone

Cufflink gives FPKM value whether it is single end data or paired end data. does FPKM value which is given by cufflink is equavalent to RPKM value for single end data? or if i am wrong does cufflink gives RPKM value?

thank you

[Devon Ryan]

For single-end reads, FPKM and RPKM are the same thing. For paired-end reads, only FPKMs are useful, so cufflinks just sticks to that term.

[Sean Davis]

I think this comment is actually the answer, so you might consider promoting it to an answer so that the original poster can accept it.

[Devon Ryan]

True, I've copied it into an answer. Do you know if there's otherwise a way to actually move a comment to an answer? That'd be handy.

[Sean Davis]

I copy-and-paste and then delete the comment, but in this case, I'd just leave it.

[Devon Ryan]

Makes sense, thanks.

Answer 1

[Devon Ryan]

[N.B., I should have just answered with this originally instead of making it a comment.]

For single-end reads, FPKM and RPKM are the same thing. For paired-end reads, only FPKMs are useful, so cufflinks just sticks to that term.

[raj.gzra]

thanks ..dpryan79