[SOLVED] Estimation of IBD ?

Questions about GenABEL (aka *ABEL) suite of packages
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MariaG
GenABEL specialist
GenABEL specialist
Posts: 36
Joined: Thu Feb 03, 2011 12:29 pm

[SOLVED] Estimation of IBD ?

Postby MariaG » Wed Feb 23, 2011 10:01 am

Hi :)

Is it possible to estimate not IBS, but IBD in *ABEL? Because I would like to reconstruct the graph of relatedness?

Thank you :)
Last edited by MariaG on Mon Feb 28, 2011 3:16 pm, edited 1 time in total.

yurii
GenABEL developer
GenABEL developer
Posts: 263
Joined: Fri Jan 21, 2011 5:20 pm

Re: Estimation of IBD ?

Postby yurii » Wed Feb 23, 2011 4:41 pm

Sure. You need to run 'ibs' with option weight="freq"

The thing you end up may be called "genome-wide IBD", but I rather prefer old-stylish name "genomic kinship"

Here is an example:

Code: Select all

library(GenABEL)
example(ibs)


You can get more details by ?ibs; also see ABEL tutorial.
Note that (Gen)ABELs are dynamically developing; while this post is intended to provide full information at the time of posting, please read on further posts, if any, as the topic may be updated with novel solutions at a later stage.

best regards,
Yurii


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