Genotyped SNPs were lost after michigan imputation server imputation and phasing
Hi All,
I run a imputation and phasing with 'michigan imputation server' for exom-beadchip array data and I found some of genotyped SNPs in the exom-chip were lost in the output file. Is it common or I made some mistake in the option selection or others?
Thanks.
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Shicheng Guo
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Check the output logs. The Michigan Imputation Server likely outputs a report of what was excluded, and why.