Entering edit mode
7.7 years ago
jmannhei
▴
10
Hi All,
I am trying to acquire scan dates so I can obtain batch information to run ComBat. However, when I try to look at the Scan Dates all I get is 'NA'. I have been able to get Scan Dates on other .CEL files with the same code so I am not sure what is going on. Here is my code
filenames<-list.files(path="GDSC CEL Files/",pattern=".CEL")
library(affy)
affy <- ReadAffy(filenames=paste(fdr,filenames,sep=''), phenoData=NULL)
protocol<-affy@protocolData
dates<-protocol@data
Here is an example of the output
> dates
ScanDate
5500024030401071707289.A01.CEL <NA>
5500024030401071707289.A02.CEL <NA>
5500024030401071707289.A03.CEL <NA>
5500024030401071707289.A04.CEL <NA>
5500024030401071707289.A05.CEL <NA>
5500024030401071707289.A06.CEL <NA>
5500024030401071707289.A07.CEL <NA>
5500024030401071707289.A08.CEL <NA>
5500024030401071707289.A09.CEL <NA>
5500024030401071707289.A10.CEL <NA>
5500024030401071707289.A11.CEL <NA>
5500024030401071707289.A12.CEL <NA>
Any help or info would be extremely helpful. Thanks !