(getpedgenos) bad geno <DEL>

[Zymaniswenzai]

Hi, smartpca team. Thanks for developing such great software!

I imputed my .vcf file and converted them to .ped file for smartpca analysis. But there is an error:

I checked my .ped file and it did have <DEL> in it.

I don't know why the <DEL> appears and want to know what should I do to get my analysis going.

Thanks for any help!

JW

[bumblenick]

My software doesn't support strings like GAACA as a single "genotype" Nick

…

On Tue, Jan 4, 2022 at 3:09 AM Jingwen Gong ***@***.***> wrote: Hi, smartpca team. Thanks for developing such great software! I imputed my .vcf file and converted them to .ped file for smartpca analysis. But there is an error: [image: image] <https://user-images.githubusercontent.com/30076901/148027964-b4a714ce-766c-4c17-b89e-5fbf35d91ae9.png> I checked my .ped file and it did have <DEL> in it. [image: 21638495908_ pic_hd] <https://user-images.githubusercontent.com/30076901/148028028-92f0281d-1ad1-4b87-9165-6c280f86f965.jpg> I don't know why the <DEL> appears and want to know what should I do to get my analysis going on. Thanks for any help! JW — Reply to this email directly, view it on GitHub <#74>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AEE77B2MKZLUSV3OL6VFS6TUUKTNNANCNFSM5LG3GM7Q> . Triage notifications on the go with GitHub Mobile for iOS <https://apps.apple.com/app/apple-store/id1477376905?ct=notification-email&mt=8&pt=524675> or Android <https://play.google.com/store/apps/details?id=com.github.android&referrer=utm_campaign%3Dnotification-email%26utm_medium%3Demail%26utm_source%3Dgithub>. You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>