Question: Pi_Hat and pedigree
0
gravatar for jzannatun
13 months ago by
jzannatun0
jzannatun0 wrote:

I am new in this field. Can anyone kindly tell me the process of making the pedigree tree of family pairs based on their pi_hat value? Any suggestions of software or programming languages are highly appreciable. Thank you in advance.

R software error • 415 views
ADD COMMENTlink modified 9 months ago • written 13 months ago by jzannatun0
1

Just the pi hat value? That's too little information. You can guess the pi-hat range if the pedigree relationship is known, or use the pi-hat among other data points to correct a wrongly attributed relationship, but without sex information, Z0 Z1 Z2 values and as much of such information as can be made available, making a pedigree is nearly impossible. How would you even figure out which groups cluster into families? Caveat emptor - machine learning could probably do it but I don't know if that technology exists yet

ADD REPLYlink written 13 months ago by RamRS25k

And why is this tagged R and software error? This is neither - you're probably using KING or PLINK's --rel-check or --genome options. This is most definitely not a software error. Please use relevant tags and more importantly, avoid irrelevant ones.

ADD REPLYlink written 13 months ago by RamRS25k
0
gravatar for jzannatun
9 months ago by
jzannatun0
jzannatun0 wrote:

Dear RamRS thank you for your reply. I used R to make pedigree tree of family pairs with their given pi_hat value using "igraph" package of R. I will avoid the irrelevant tags next time.

ADD COMMENTlink written 9 months ago by jzannatun0
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1907 users visited in the last hour