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Post by OXTR11 on Jan 27, 2015 13:57:25 GMT
Dear All,
We tried to convert raw Illumina Genotype Files "GSGT Version 1.9.42 to PED files using GCTA, but we always receive the error code: Error: "the SNP [kgp1000003] specified in the summary file does not match
that in the raw genotype file [a1]. The order of the SNPs have been changed?" Could you give us a hint what may cause the error?
Thank you very much in advance!
Best
Martin Fieder
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Post by FAR on Feb 18, 2015 9:56:08 GMT
Dear All,
I have obtained the same Error converting Illumina Genotype Files "GSGT Version 1.9.4; BovineSNP50_v2" into PED files using GCTA.
Please, expert comments will be more than wellcome!
Best Fran
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Post by Jian Yang on Feb 25, 2015 15:12:30 GMT
This function of GCTA only supports data from a previous version of GenomeStudio. Please note that the latest version GenomeStudio is able to export genotype data in PLINK format.
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