AlexTISYoung
commented
2 years ago You don't need to infer IBD if you only have parent offspring data. I recommend reading the guide and running through the tutorial: https://snipar.readthedocs.io/en/latest/guide.html https://snipar.readthedocs.io/en/latest/tutorial.html
On Mon, 5 Sept 2022 at 11:25, jtahir @.***> wrote:
Hi there I have a question. I have genetic data of female parent, F1s, but missing the male parent. How can I proceed to impute the missing parent data? Do i need to calculate IBDs first. My data is in the following format;
CHROM POS Parent 1 Parent2 F1_1 F1_2 ........F1_199 LG1 68111 aa ab aa ab .. LG29 17,858,85 ab aa aa aa
thanks
— Reply to this email directly, view it on GitHub https://github.com/AlexTISYoung/snipar/issues/22, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABQQS6PUO32KOHVYFZU3CWLV4XDAZANCNFSM6AAAAAAQE3GHMY . You are receiving this because you are subscribed to this thread.Message ID: @.***>
jtahir
Hi there I have a question. I have genetic data of female parent, F1s, but missing the male parent. How can I proceed to impute the missing parent data? Do i need to calculate IBDs first. My data is in the following format;
CHROM POS Parent 1 Parent2 F1_1 F1_2 ........F1_199 LG1 68111 A/A A/T A/C ......... A/A .. LG29 17,858,85 A/T A/A A/T ......... A/A
There are likely abxaa makers, or vice versa, but its also likely we have abxab calls thanks