Having a problem with convert.snp.ped in GenABEL (on linux). My map file looks like this (tab-separated) (called Genotype.map)
chrom name position 13 SNP1 39703523 My ped file looks like this (Called Genotype.ped) PF1 PF1 0 0 2 -9 C C PF2 PF2 0 0 2 -9 C A PF3 PF3 0 0 1 -9 C C PF4 PF4 0 0 1 -9 C C The commands I'm using are: > library("GenABEL") > data <-convert.snp.ped(pedfile="~/Genotype.ped" ,mapfile="~/Genotype.map", outfile="~/Genotype.out") The error I get is: Error in convert.snp.ped(pedfile = "~/Genotype.ped", : could not open file '~/Genotype.map' ! Any idea? It's in the same directory as the ped file, so I don't know why it can find the ped file and not the map file? Thanks [[alternative HTML version deleted]] ______________________________________________ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.