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rseiter comments on Get genotyped for free ( If your IQ is high enough) - Less Wrong
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I think Promethease (http://promethease.com) is a good and inexpensive ($5) start. If you have both sets of results I would recommend using 23andMe given my experience with uploading BGI data. Web searching "promethease review" will give some details and alternatives. Hopefully those of us in the BGI study can work out a good way of analyzing that data.