[GenABEL-dev] GenABEL 1.6-6

[pirastu at burlo.trieste.it]

Seems perfect to me. :)

Nicola


> Quite OK :)
>
> Xia
>
> On May 2, 2011, at 12:59 PM, Yurii Aulchenko wrote:
>
>> Nicola, Xia,
>>
>> With upcoming LUPA workshop, I want to release version 1.6-6 of
>> GenABEL, which include your code changes as well. After release is on
>> CRAN, and testing at the workshop, it will be announced on forum and
>> web-site; I will discuss the text of announcement with you.
>>
>> Please let me know if this is OK with you, and if there are any
>> last-minute considerations.
>>
>> CANGES.LOG below; this will serve as the base for announcement.
>>
>> best wishes,
>> Yurii
>>
>>
>> Added Xia Shen's procedure 'polygenic_hglm'. Features: quick
>> convergence, standard errors for fixed effects.
>>
>> Updated check.marker, added warning if no. Y-markers is < 10
>>
>> Applied the patch of Nicola Pirastu
>> http://lists.r-forge.r-project.org/pipermail/genabel-devel/2011-March/000182.html
>> to descriptives.trait. Added RUnit regression tests, updated
>> documentation. Bugs fixed: [#1184], [#1185], [#1259]
>>
>> Added 'reconstructNPs' function; added extra options
>> to 'findRelatives'.
>>
>> Added a number of functions facilitating relationship checks.
>> The core function is 'findRelatives'. 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
>>
>> Changes in convert.snp.mach documentation to reflect the fact that
>> the map-file should have header; changes to convert.snp.illumina
>> documentation to reflect the nature of the data better; added
>> option 'mapHasHeaderLine' to convert.snp.ped and updated documentation
>> (resolving feature request #1317).
>
>