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gingr .vcf export problem with reference state coding #9

Open tallnuttcsiro opened 9 years ago

tallnuttcsiro commented 9 years ago

Hi,

when I export a vcf file, the SNP states in the 'sample' columns appear to be wrong. The reference genome is often not recorded in state '0'. SNPs with more than two states seem to also be missing the '0' state, and only have two: 1 and 2.

Thanks