I used seqSNP2GDS function to convert SNP GDS file into SeqArray GDS file. When I try to do seqGetData(seqvargds, "genotype"), it gives error: Invalid dimension of 'genotype/data' .
How can I find where the problem is? My original SNP GDS file? This file doesn't have problem, as I used it in association test with GENESIS package. Everything is ok there.
I used seqSNP2GDS function to convert SNP GDS file into SeqArray GDS file. When I try to do seqGetData(seqvargds, "genotype"), it gives error: Invalid dimension of 'genotype/data' .
seqGetData(seqvar, "allele")[1:20] gives results like: [1] "G,A" "C,T" "T,TC" "C,A" "A,G" "G,GA" "T,G" "A,G" "C,A" "C,T" [11] "C,T" "C,CT" "A,C" "T,A" "C,A" "C,T" "C,T" "T,C" "T,C" "C,T"
How can I find where the problem is? My original SNP GDS file? This file doesn't have problem, as I used it in association test with GENESIS package. Everything is ok there.