I have used files data1.tfam, data1.tped which were generated in a UNIX server
In my old PC/R 2.13 I gave the command
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convert.snp.tped(tped="sbt.tped", tfam="data1.tfam", out="data1.raw", strand="+")
and everything went smooth, but now, with same files made by our UNIX system (and with MAC / newest R 2.14)
the same command gives an error message
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Reading individual ids from file 'data1.tfam' ...
... done. Read 113 individual ids from file 'data1.tfam'
Reading genotypes from file 'data1.tped' ...
Error in convert.snp.tped(tped = "data1.tped", tfam = "data1.tfam", out = "data1.raw", :
coding '0ֿ_?' for SNP not recognized !
Does anyone know why?