Question: Depth or # of reads for RNASeqPower
0
gravatar for drnknmstrr
4.8 years ago by
drnknmstrr0
drnknmstrr0 wrote:

Hi,

I am confused by this sentence in the vignette for RNASeqPower:

"The depth of sequencing and consequent expected count µ for a given transcript, argument
depth."

I don't understand how Mu and depth can be used interchangeably. Should this just be the number of reads mapping to a transcript or does this value need to be normalized by transcript length and read length?

cheers,

Ruben

 

 

rnaseqpower • 589 views
ADD COMMENTlink written 4.8 years ago by drnknmstrr0

From looking at the code, I believe depth = mu = number of reads.

https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/RNASeqPower/R/rnapower.R

ADD REPLYlink written 4.8 years ago by Michael Love24k
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