Rob Long

Did you make a `23andme_v5_ht19_ref.txt.gz` reference? I've included a v3 and v4. It's possible that leaving indels in a new reference would fail in that way, but I wouldn't expect...

Hi Eugene, The script I used to generate the references is here: https://github.com/arrogantrobot/hg19_23andme_refs So you saw those 8140 sites in the "sites_not_in_reference.txt" file?

Thanks @JHFreeman , would you mind listing a few of those sites here? Just a chrom and position would be helpful. I need to go grab my personal data once...

Thank you for noticing. I will address this shortly.

Teyden, I have given this a look, and it appears as though 23andme have switched from gzipped tar to zip compression of the exported raw data file. I will address...

Not sure what's up with your 1000genomes issue @teyden . Do you still have this issue? Is there an error message associated with it?