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Hello R-user! I am running R 2.7.0 on a Power Book (Tiger). (I am still R and statistics beginner) I try to find the most important variables to divide my dataset as given in a categorical variable using randomForest. Is randomForest() able to deal with count data? Or is there no difference because only the ranks are used in the trees? Thanks in advance Birgit Birgit Lemcke Institut f?r

Hello R-user! I am running R 2.7.0 on a Power Book (Tiger). (I am still R and statistics beginner) I tried rfImpute (randomForest) and as far as I understood should it replace NA`s using a proximity matrix: > set.seed(100000) > Subset5Imputed<-rfImpute(Sex~., data=Subset5) ntree OOB 1 2 300: 11.78% 12.36% 11.21% ntree OOB 1 2 300: 12.07% 12.64%

R version 2.6.2 PowerBook G4 Hello R User, I try to perform an ANCOVA using the glm function. I have a dataset with continuous and categorical data (explanatory variables) and my response variable is also binary categorical. Fehler: NA/NaN/Inf in externem Funktionsaufruf (arg 4) Zus?tzlich: Warning messages: 1: In Ops.factor(y, mu) : - nicht sinnvoll f?r Faktoren (makes no sense for

Hello R-user! I am running R 2.7.0 on a Power Book (Tiger). (I am still R and statistics beginner) I try to find the most important variables to divide my dataset as given in a categorical variable. code: Test.rf4<-randomForest(Sex~.,na.action=na.roughfix, data=Subset4, importance=TRUE, proximity=TRUE, ntree=10000, do.trace=1000, keep.forest=FALSE) My dataset contains also ordered

Hello R-user community! I am running R 2.7.0 on a Power Book (Tiger). (I am still R and statistics beginner) Presently I try to run the function metaMDS (vegan) using an existing dissimilarity-matrix. As I would like to start with this matrix I thought I could just give the matrix using the x= -argument Test<-metaMDS(x=Dist.Gower) Fehler in inherits(comm, "dist") :

Hello, Can anyone please suggest any packages in R that can be used to overlay gene expression data on SNP (affymetrix) copy number ? Thanks, Ekta Senior Research Associate Bioinformatics Department Jubilant Biosys Pvt Ltd, #96, Industrial Suburb, 2nd Stage Yeshwantpur, Bangalore 560 022 Ph No : +91-80-66628346 The information contained in this electronic message and in any attachments to this

Hello R-Cracks, I am using R 2.6.1 on a PowerBook G4. I would like to perform a discriminant function analysis. I found lda in MASS but as far as I understood, is it only working with explanatory variables of the class factor. My dataset contains variables of the classes factor and numeric. Is there another function that is able to handle this? Thank you all in advance. Greetings Birgit

Dear All, I am using the LIMMA package to create 2 contrasts for my data and then calculating the vennCounts of the decideTests from the contrast.fit to be able to create venn Diagrams. The code works fine but the summary(results) shows zeros for all i.e. no gene were up regulated or downregulated. This is not true for my data since toptable output shows Log fold change greater than > 2. I am

Hi all, After Googling around a while, I've found bits and pieces of my puzzle, but never someone who's got the whole thing. Here's what I'm trying: - Run MS Access 97 and MYOB - Under FreeBSD 5.3 - With multiple simultaneous users (X Terminals) Access 97 and MYOB are the only Windows programs we'll need to run, everything else will be done with "native"

Dear All, Thank you kindly for such detailed replies. I was looking to overlay data using algorithms so that i am able to tell which genes are differentially expressed due to changes in copy number. I did a pubmed search and found only 7 literature pieces all of which use in-house algorithms. I am yet to explore Gviz since it wouldn't work on R 2.14, would try it after upgrading to R 2.15.