I have tried out the new CRMAv2 method as described in the vignette
"Estimation of total copy numbers using the CRMA v2 method", with the
option of not combining A and B alleles, and for 250K chip type,
"Mapping250K_Nsp". In doing this I have had the program crashing at
what seems to be a bug in
Hi Sabrina.
See below.
On 23/01/2009, at 3:17 AM, sabrina wrote:
>
> Hi, Mark:
> Thanks for the suggestions. I think I will go with one of the
> replicates for now, just to make things simple, later on I will deal
> with the replicates.
> Now, here is another problem I have. I used the following
Hi, I´m working with the following vignette (with the 100k platform):
library(aroma.affymetrix)
#SetUp
verbose <- Arguments$getVerbose(-8)
timestampOn(verbose)
name <- "controles"
chipTypes <- c("Mapping50K_Hind240", "Mapping50K_Xba240")
cdfs <- lapply(chipTypes, FUN=function(chipType) {
Aff
Hi, Mark:
Thanks for the suggestions. I think I will go with one of the
replicates for now, just to make things simple, later on I will deal
with the replicates.
Now, here is another problem I have. I used the following code to
generate the firma score:
firma <-FirmaModel(plm);
fit(firma,verbose=
Thanks Mark. Now, I am able to load the CDF file.
Kind regards,
Anbarasu
On Jan 21, 9:38 pm, Mark Robinson wrote:
> Anbarasu.
>
> In the 'Setting up annotation files' page, it says "Aroma.affymetrix
> searches for CDF files in the annotationData/ directory of the current
> working directory
