I have 300 wheat lines phenotyped in two years with two treatment with four replication (model CRD). Could you please have anyone please tell what is best suited R package for BLUP calculation?
You can try lme4 or sommer. There is also ASReml, but it is a paid package.
ASReml would be the best pacakge to get BLUPs. You may use the following code:
BLUP< -summary(model,coef=TRUE)$coef.random
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