Hi everybody, I am trying to get my data into marrayRaw, but it isn't working. I transformed my data into a matrix with the as.matrix() function. I don't know how to use the fnames, so I tried to avoid it and used: array.raw<-read.marrayRaw(array,path=".",layout=nieuwearray.layout,nam e.Gf="F1Median", +name.Gb="B1Median",name.Rf="F2Median",name.Rb="B2Median",header=TRUE) I got an error message: [1] "Reading ./PHECy5" Error in file(con, "r") : unable to open connection In addition: Warning message: cannot open file `./PHECy5' this is my matrix: ID F1Median B1Median F2Median B2Median 1 "PHECy5" " 574" "538" "1128" "1095" 2 "HYGRO19" " 570" "533" "1043" "1119" 3 "SM2229" " 565" "558" "1056" "1166" 4 "NM021506" " 533" "569" "1053" "1147" 5 "NM019976" " 550" "568" "1103" "1145" 6 "NM019458" " 555" "561" "1064" "1169" 7 "NM010164" " 572" "570" "1170" "1162" 8 "NM009432" " 653" "569" "1154" "1172" 9 "NM009756" " 596" "598" "1156" "1189" 10 "NM010167" " 708" "663" "1119" "1216" 11 "NM019628" "2882" "609" "3175" "1222" 12 "NM008715" " 929" "618" "1293" "1253" Can you please tell me how to use this function correctly, beceause I don't understand the manuals. Thanks Janneke janneke_zant@hotmail.com [[alternative HTML version deleted]]

Hi, read.marrayRaw is design to read data from flat file into R. If you already have your data in R as an matrix object, what you can do is the following: ## The following will only read one array into marrayRaw. array.raw <- new("marrayRaw", maGf=array[,"F1Median"], maGb=array[,"B1Median"], maRf=array[,"F2Median", maRb=array[,"B2Median"]) Cheers Jean On Mon, 17 May 2004, Maarten Morsink wrote: > Hi everybody, > > I am trying to get my data into marrayRaw, but it isn't working. I transformed my data into a matrix with the as.matrix() function. I don't know how to use the fnames, so I tried to avoid it and used: > array.raw<-read.marrayRaw(array,path=".",layout=nieuwearray.layout,n ame.Gf="F1Median", > +name.Gb="B1Median",name.Rf="F2Median",name.Rb="B2Median",header=TRUE) > I got an error message: > [1] "Reading ./PHECy5" > Error in file(con, "r") : unable to open connection > In addition: Warning message: > cannot open file `./PHECy5' > > > this is my matrix: > ID F1Median B1Median F2Median B2Median > 1 "PHECy5" " 574" "538" "1128" "1095" > 2 "HYGRO19" " 570" "533" "1043" "1119" > 3 "SM2229" " 565" "558" "1056" "1166" > 4 "NM021506" " 533" "569" "1053" "1147" > 5 "NM019976" " 550" "568" "1103" "1145" > 6 "NM019458" " 555" "561" "1064" "1169" > 7 "NM010164" " 572" "570" "1170" "1162" > 8 "NM009432" " 653" "569" "1154" "1172" > 9 "NM009756" " 596" "598" "1156" "1189" > 10 "NM010167" " 708" "663" "1119" "1216" > 11 "NM019628" "2882" "609" "3175" "1222" > 12 "NM008715" " 929" "618" "1293" "1253" > > > Can you please tell me how to use this function correctly, beceause I don't understand the manuals. > > Thanks Janneke > janneke_zant@hotmail.com > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor >