Thank you, Wolfgang.
I did use limma to analyze the same data set days ago, and hoped to
"multtest" for a validation of my limma result. So I can't use
"multtest" for one group data?
[mailto:bioconductor-bounces at stat.math.ethz.ch] On Behalf Of
Sent: Thursday, June 22, 2006 10:47 AM
To: yuhong ning
Cc: Katherine S. Pollard; bioconductor at stat.math.ethz.ch
Subject: Re: [BioC] multtest error - class label problem
the error message says it all, you specify
which corresponds to one group of size three, while mt.maxT expects
Katie - There seems to be a buglet in the code that produces the error
message, making it a bit hard to read, could you check this?
If you only have three replicates, I would recommend to a moderated
t-statistics such as available with the limma package (eBayes
see also http://www.bepress.com/bioconductor/paper7
yuhong ning wrote:
> I am using "multtest" to analyze proteomics data. The experiment is
> compare protein differential expression between Wild Type and mutant
> cell types. MS software generates a ratio of intensity of
> heavy-isotope/light-isotope which correspondent to wild type vs.
> mutant. It is a triplicate experiment, but for some proteins, ratio
> data are missing. My R script is very simple:
>> dd<-read.delim("log2_data.txt", header=TRUE)
>> res<-mt.maxT(dd, clabel, B=20)
> Error in mt.checkclasslabel(classlabel, test) :
> in t test, every number in class label needs to be 0 or 1
> neither of the 0 set or 1 set can be empty set The folllowing is
> setting of classlabel 0 in t test, every number in class label needs
> to be 0 or 1 and neither of the 0 set or 1 set can be empty set The
> folllowing is your setting of classlabel 0 in t test, every number
> class label needs to be 0 or 1 and neither of the 0 set or 1 set can
> be empty set The folllowing is your setting of classlabel 0
> Could any one help?
> Thanks a lot.
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> Search the archives:
Wolfgang Huber EBI/EMBL Cambridge UK http://www.ebi.ac.uk/huber
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