Model values eaqual or greater than 10 on BioMercator meta-analysis 1/2 (Veyrieras)

[Arfang badji]

Dear support team.

Am running a meta-analysis on several traits on maize but on the first stem of the meta-analysis I have equal values for all the models and they are as high as 39.

So, I am wondering what could be the problems as Kmax = 10.

Thank you in advance for your answer.

Arfang

[Arfang badji]

Please I have other problems:

I realized that when I repeat the analysis it gives as much different results as times I run the analysis, which is embarrassing because it has a consequence on the results of the second analysis in terms of numbers of metaQTLs and QTLs' clustering patterns.

Also, when I load the genome version (physical files from BioMercator tests dataset as I am working on maize) it shows that it's loading but at the end never displays. I don't know what's wrong.

On Tuesday, July 4, 2017 at 4:12:04 PM UTC+3, Arfang badji wrote:

Dear support team.

Am running a meta-analysis on several traits on maize but on the first step of the meta-analysis I have equal values for all the models and they are as high as 39.

[Yannick De-Oliveira]

Dear Arfang,

 

When a meta-analysis is ran, BioMercator (metaQTL algorithm) test all the possible cluster number from 1 to kmax but also the case kmax = number of QTLs

So my guess is that you have 39 QTLs on your chromosome with little CI, in that case metaQTL is not able to find a good clustering and the number of metaQTLs is equal to the number of former QTLs

 

About the genome version does the chromosomes in your genetic maps has the same name as in the gff file ?

 

About the analysis that give differnt results each time, I have no idea, can you give more details on what is different ? the number of metaQTLs ? Between if can send me yours maps I can have a look

 

Best regards

Yannick

 

De : biome...@googlegroups.com [mailto:biome...@googlegroups.com] De la part de Arfang badji
Envoyé : mardi 4 juillet 2017 17:12
À : biomercator <biome...@googlegroups.com>
Objet : [biomercator] Re: Model values eaqual or greater than 10 on BioMercator meta-analysis 1/2 (Veyrieras)

--
You received this message because you are subscribed to the Google Groups "biomercator" group.
To unsubscribe from this group and stop receiving emails from it, send an email to biomercator...@googlegroups.com.
For more options, visit https://groups.google.com/d/optout.