[GenABEL-dev] Journal Club on Statistical Genomics

[Maria G]

Hi dear all :)

> Would you have a clear-cut question of type (3)


In the section - Methodological nuances: «How to… ?» - I would discuss mostly questions of "how does the method work and why in a specific situations this one is better than the other".  

A good actual example we have right now on our GenABEL forum:
 
http://forum.genabel.org/viewtopic.php?f=6&t=217&p=587#p587  

where the question has arisen: 

"If there are different methods of obtaining p-values from linear regression for association analysis and which one should is better to use?"

And it's obvious that, might be, we just need a little bit more theoretical information to answer it and to find the differences between Plink and R-based GeanABEL (which is confusing for a lot of people! ;) ..)

My personal feeling as a user of GenABEL is, that I want to understand exactly what's going on with my data, but not just to push the correct buttons in such a nice and powerfull tool  ;) 

My best wishes to all of yours :)

Mascha

31.03.2011, 03:53, "Yurii Aulchenko" <yurii.aulchenko at gmail.com>:
> Dear Masha,
>
>>  Concerning the content of the www.genabel.org, what would you say about the opening a new forum with the title something like:  «Journal Club on Statistical Genomics» ?!
>>
>>  It might be useful for both experienced and beginners in statistical background of GenABEL applications. The general idea is to give us a possibility to share the knowledge on biostatistics based on the papers available in Internet.
>
> Many thanks for this suggestion!
>
> I am personally very much in favor of doing this. This would be in a
> good agreement with open-source-based methodology development
> framework we are trying to build in GenABEL-project; such forum may
> lower 'entry threshold' (compared to semi-closed genabel-devel mailing
> list) and will extend methodology discussion to a wider audience.
> Taking GenABEL-project-centric view, I feel that having such forum is
> likely to bring a broader range of methodological topics into the
> project's framework, and potentially attract more contributors.
>
>> Please, find the brief description of the forum attached in the file «Journal_Club_on_Statistical_Genomics.rtf». As I would see that, in the Forum there might be at least 3 separate sections:
>>
>>  (1)     Bright papers: «Good to know …»  ->  To discuss any interesting paper in the frame of Statistical Genomics
>>  (2)     Essential notions: «What is … ?» -> To clarify any basic concepts of Statistical Genomics
>>  (3)     Methodological nuances: «How to… ?» -> To focus on different methods of Statistical Genomics
>
> I am totally supportive of (1) and quite positive about (2). As for
> (3), I wonder how much it may overlap with (2) and the mainstream
> GenABEL-user forum. Would you have a clear-cut question of type (3),
> which does not fall into (2) and GenABEL-user?
>
>>  If it could be of interest I would definitely participate in the forum organization
>
> Let us discuss your suggestion at this mailing list, and, if positive,
> we would definitely be more than willing to provide infrastructure for
> such forum. Given the agreement, and the fact that you are already
> moderating GenABEL-user forum, there is no doubt that you are capable
> of managing such a forum, and you willingness to invent it will be
> very much appreciated!
>
> To conclude: my vote is "yes" (with some reservations)
>
> with best wishes,
> Yurii