[R] limma function problem

Hi, I have two data set of normalized Affymetrix CEL files, wild type vs Control type.(each set have further three replicates). wild.fish AffyBatch object size of arrays=712x712 features (10 kb) cdf=Zebrafish (15617 affyids) number of samples=3 number of genes=15617 annotation=zebrafish notes=

[R] boxplot

Hi, I have simple query In which package drawBoxplot function is available? Regards, Sukhbir Singh Rattan [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read

[R] creating R roll in Centos OS

Hi I have Centos Operating System. I m installing R on it. For this I have to create roll of R. So, how to create the roll of R, regarding this what to be downloaded and from where? Plz help. By Sukhbir Singh Rattan. [[alternative HTML version deleted]]

[R] boxplot

Hi, I m not able to plot normalized data(normalization by rma) using boxplot. I don't know why? basically, object(formed of normalized data) belong to ExpressionSet class. It is showing error Error in x[!xna] : object of type 'S4' is not subsettable In addition: Warning messages: 1: In is.na(x)

[R] Annotation database

Hi, I have 15 CEL files of Affymetrix platform from GEO. Title of experiment is : Ecoli_ASv2 Affymetrix E. coli Antisense Genome Array. I am looking for the package available in R for this array for annotation. I have already tried doing annotation from packages like org.EcK12.eg.db but I

[R] how to set crontab for updating the repositories?

Hi, I have downloaded around 60GB package repositories of bioconductor to use it locally and to set up mirror at my university site. I have installed the mirror with rsync command and able to access also. Now I have to set a cron job for its daily updating from bioconductor website. How should

[R] .rda extension

Hi, I have very simple question. How to open/read/write the file with .rda extension which is usually available in the data folder of any package? By Sukhbir Singh Rattan [[alternative HTML version deleted]] __ R-help@r-project.org mailing