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> Dear R and Bioconductor Helpers, > > I am using a package called RankProd under Bioconductor to analysis my > Y98 (yeast) microarray data. I had no problem following the example in > the vignette but got stocked when I tried to analyze my own data. > > When I tried to run the following command, > > RP.out <- RP(rrf.sub, rrf.cl.sub, gene.names = y98.gnames, rand = 123) > > I got the following response: > > Rank Product analysis for two-class case > > Starting 100 permutations... > Computing pfp .. > Error in "row.names<-.data.frame"(`*tmp*`, value = c("logical(0)", > "logical(0)", : > duplicate 'row.names' are not allowed I would guess that your gene name y98.gnames has duplicates, meaning one gene name appears more than once. This is normal since genes might be spotted more than once on one chip, I think I would change my program to accomodate this. But for now, it would be fine if you can change your gene name to avoid duplicates. I will let you know when after I checked my program. Fangxin > What is the problem? Is there something wrong with my gene names file? > How can I fix it? > > Thank you very much for your kind help. > > > Best Regards, > > - Cleo > > > > Chia-Wen Cleo Chang > PhD Student > CMB, BioCentrum-DTU, Building 223, room 213 > Technical University of Denmark, DK-2800 Lyngby, Denmark > Telephone: +45 4525 2997, Fax: +45 4588 4148 > E-mail: cwc at biocentrum.dtu.dk > > > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > > -------------------- Fangxin Hong Ph.D. Plant Biology Laboratory The Salk Institute 10010 N. Torrey Pines Rd. La Jolla, CA 92037 E-mail: fhong at salk.edu (Phone): 858-453-4100 ext 1105