what is effB ? in grammar.

Questions about GenABEL (aka *ABEL) suite of packages
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miens
Posts: 1
Joined: Mon Apr 07, 2014 11:18 am

what is effB ? in grammar.

Postby miens » Mon Apr 07, 2014 11:28 am

I am new user of R and GenAbel and I 'm learning things as I go along and try to do my data analysis. I'm working with the same quantitative trait in all software but I have a different value of effect of allele between : Plink, Emmax, Gemma and GenABEL. I need know why GenABEL with grammar() functions the value effB is too different ? :

GenABEL effB
rs81376857 -0.95
rs81376815 0.85

EMMAX Beta
rs81376857 0.04
rs81376815 0.03

Gemma Beta
rs81376857 0.05
rs81376815 0.02

Plink Beta
rs81376857 0.03
rs81376815 0.03

Best regards,
miens

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