[GenABEL-dev] [Genabel-commits] r701 - in pkg/GenABEL: . R inst/unitTests man

[Yurii Aulchenko]

Dear All,

In this commit, I have added 'findRelatives' and four supporting
functions. This function make inferences on relationship from genomic
data. Compared to guessing relations from genomic kinship matrix, this
procedure offers several enhancements: (1) by use of IBD/IBS 3-state
space, it allows to distinguish between some pairs, which have the
same kinship (e.g. parent-offspring from brother-sister; uncle-nephew
from grandparent-grandchild, etc.)  (2) it reports likelihood,
allowing for more rigorous inferences.

All functions are documented using 'roxygen'; RUnit test designed for
'findRelatives'.

More details at

http://lists.r-forge.r-project.org/pipermail/genabel-commits/2011-March/000084.html

best wishes,
Yurii

On Tue, Mar 22, 2011 at 2:17 AM,  <noreply at r-forge.wu-wien.ac.at> wrote:
> Author: yurii
> Date: 2011-03-22 02:17:57 +0100 (Tue, 22 Mar 2011)
> New Revision: 701
>
> Added:
>   pkg/GenABEL/R/blurGenotype.R
>   pkg/GenABEL/R/findRelatives.R
>   pkg/GenABEL/R/generateOffspring.R
>   pkg/GenABEL/R/getLogLikelihoodGivenRelation.R
>   pkg/GenABEL/R/makeTransitionMatrix.R
>   pkg/GenABEL/inst/unitTests/runit.findRelatives.R
>   pkg/GenABEL/man/blurGenotype.Rd
>   pkg/GenABEL/man/findRelatives.Rd
>   pkg/GenABEL/man/generateOffspring.Rd
>   pkg/GenABEL/man/getLogLikelihoodGivenRelation.Rd
>   pkg/GenABEL/man/makeTransitionMatrix.Rd
> Modified:
>   pkg/GenABEL/CHANGES.LOG
>   pkg/GenABEL/NAMESPACE
>   pkg/GenABEL/generate_documentation.R
>   pkg/GenABEL/inst/unitTests/report.html
>   pkg/GenABEL/inst/unitTests/report.txt
>   pkg/GenABEL/inst/unitTests/reportSummary.txt
>   pkg/GenABEL/man/GenABEL-package.Rd
>   pkg/GenABEL/man/polygenic.Rd
>   pkg/GenABEL/man/polygenic_hglm.Rd
> Log:
> added 'findRelatives' and four supporting functions; also some accumulated changes
>