Hello,

I'm trying to collect the data from the TCGA COAD project using FirebrowseR. I'm fallowing the "how to use" manual https://github.com/mariodeng/FirebrowseR/blob/master/vignettes/FirebrowseR.Rmd

I would like to modify the following section in order to retrive all the genes expression values for each sample. Unfortunately the function Samples.mRNASeq require a list of gene names. There is a way to retrive all the expression values without specify the single names? Eventually were I could take the full gene list ?

  diff.Exp.Genes = c("ESR1", "GATA3", "XBP1", "FOXA1", "ERBB2", "GRB7", "EGFR",
                   "FOXC1", "MYC")

all.Found = F 

page.Counter = 1

mRNA.Exp = list()

page.Size = 2000 # using a bigger page size is faster
while(all.Found == F){
  mRNA.Exp[[page.Counter]] = Samples.mRNASeq(format = "csv",
                                             gene = diff.Exp.Genes,
                                             cohort = "BRCA",
                                             tcga_participant_barcode =
                                               brca.Pats$tcga_participant_barcode,
                                             page_size = page.Size,
                                             page = page.Counter)
  if(nrow(mRNA.Exp[[page.Counter]]) < page.Size)
    all.Found = T
  else
    page.Counter = page.Counter + 1
}
mRNA.Exp = do.call(rbind, mRNA.Exp)
dim(mRNA.Exp)

Thanks