Displaying 3 results from an estimated 3 matches for "probelist".
2012 Mar 30
1
Help with the lumi R package
...so the sample code i'm trying to follow is below:
###################################################
### code chunk number 30: filtering
###################################################
presentCount <- detectionCall(example.lumi)
selDataMatrix <- dataMatrix[presentCount > 0,]
probeList <- rownames(selDataMatrix)
###################################################
### code chunk number 31: Identify differentially expressed genes
###################################################
## Specify the sample type
sampleType <- c('100:0', '95:5', '100:0&...
2012 Mar 30
0
Help with lumi package R code
...so the sample code i'm trying to follow is below:
###################################################
### code chunk number 30: filtering
###################################################
presentCount <- detectionCall(example.lumi)
selDataMatrix <- dataMatrix[presentCount > 0,]
probeList <- rownames(selDataMatrix)
###################################################
### code chunk number 31: Identify differentially expressed genes
###################################################
## Specify the sample type
sampleType <- c('100:0', '95:5', '100:0&...
2008 Nov 30
2
Snow and multi-processing
...ck script
cl <- makeCluster(nnodes,method)
mArrayData <- getData(experiments)
clusterExport(cl, 'mArrayData')
Results <- parLapply(cl, theMapList, function(x) t.testFnc(x))
With a function that define the mArrayData argument as a default parameter as in
t.testFnc <- function(probeList, array=mArrayData){
x <- array[probeList$A,]
y <- array[probeList$B,]
res <- doSomeTest(x,y)
return(res)
}
Using this strategy, I was able to gain full advantage of my cluster and reduce the analysis time by the number of nodes I have in our cluster. The large data matrix...