Hi all! I am using GenABEL on R for GWAS analysis. I am having a couple of issues: First, I am having a problem reading files (.map, & .ped, size 900Mb, using windows 32-bit) onto R in the "convert.snp.ped" statement. I am thinking this problem is likely due to the large size of the files & my version of R is not able to handle them, since I can read in smaller files. Second, and the more precedent issue, is with the load.gwaa.data statement. It keeps giving me the error: "more columns than column names". I have tried to read in the .dat file (and alternately the .csv file) without the header, that does not work. I have checked my data-set and there aren't any discernible columns that are missing. Here's my code: mix <- load.gwaa.data (phe = "Z:/.../CCF Pheno.csv", gen = "pedmap-0.raw", force = T) Any help will be appreciated. Thanks! Euphie [[alternative HTML version deleted]]
Hi all! I am using GenABEL on R for GWAS analysis. I am having a couple of issues: First, I am having a problem reading files (.map, & .ped, size 900Mb, using windows 32-bit) onto R in the "convert.snp.ped" statement. I am thinking this problem is likely due to the large size of the files & my version of R is not able to handle them, since I can read in smaller files. Second, and the more precedent issue, is with the load.gwaa.data statement. It keeps giving me the error: "more columns than column names". I have tried to read in the .dat file (and alternately the .csv file) without the header, that does not work. I have checked my data-set and there aren't any discernible columns that are missing. Here's my code: mix <- load.gwaa.data (phe = "Z:/.../CCF Pheno.csv", gen = "pedmap-0.raw", force = T) Any help will be appreciated. Thanks! -- View this message in context: http://n4.nabble.com/GenABEL-problems-with-load-gwaa-data-tp1567679p1567679.html Sent from the R help mailing list archive at Nabble.com.