Hello James, Thank you for your answer. I manage to open my file and runnung Genorm with the following script: (I have a text file with genes in the 1st five columns and groups identifiers in the 6th one) donnees <- as.matrix(read.table("housekeeping_genes_ALK.txt", header=TRUE, sep="\t",row.names=1, as.is=TRUE)) hkgs<-c("RPL0","GAPDH","MLN51","X28S","X18S") hkgsGenorm <-selectHKs(donnees[,-6], method = "geNorm", minNrHKs = 2, log = TRUE, Symbols=hkgs ,trace = TRUE, na.rm = TRUE) I think Genorm is working with this script, however I'm not able to run NormFinder correctly. Camille 2014-06-16 11:49 GMT+02:00 James Perkins <jimrperkins@gmail.com>: > Hi Camille > > There are some examples in the vignette for the package. > > You can see an example file by using: > > path <- system.file("exData", package = "ReadqPCR") > qPCR.example <- file.path(path, "qPCR.example.txt") > > More details are given in section 3, page 7 of the vignette, of the different columns needed. > > > It will work without technical replicates, as long as the gene names are distinct. Presumably you have biological replicates? > > > Jim > > > > > > > > On 14 June 2014 14:56, Camille [guest] <guest@bioconductor.org> wrote: > >> Dear all, >> >> I'm a phD student in Center of Cancerology of Toulouse France. I'm a new >> R user, and I would like to use the package "NormqPCR" for the functions >> geNorm and Normfinder. >> I don't have raw data file, I have a file which I can modify >> with sample names, gene names and Ct values where I don't have replicates >> because I was using Fluidigm method for amplification. >> How to do to use the function read.qPCR, how to configure my tab with Ct >> values to allow R to load my data? >> Best regards >> >> Camille >> >> -- output of sessionInfo(): >> >> read.qPCR >> >> -- >> Sent via the guest posting facility at bioconductor.org. >> >> > > > -- > James R Perkins PhD > Marie Curie Post-Doctoral Researcher > Research Laboratory, Allergy Unit > University Hospital of Malaga-IBIMA > 29009 Malaga, Spain > > [[alternative HTML version deleted]]