Error in as.vector(data) : no method for coercing this S4 class to a vector

[wtchoga]

Hi Li

I am getting this error: Error in as.vector(data) : no method for coercing this S4 class to a vector; when I try to run

pve <- apply(geno,2,var) * (fit$g^2) / var(pheno[,1]).

Can you please advise.

[YinLiLin]

Thanks for using hibayes. Please try pve <- apply(as.matrix(geno),2,var) * (fit$g^2) / var(pheno[,1]).

[wtchoga]

fit <- bayes(y=pheno[, 1], X=geno, map=map, windsize=1e6, wppa=0.01, model="BayesCpi", niter=20000, nburn=10000, outfreq=10) Error in bayes(y = pheno[, 1], X = geno, map = map, windsize = 1e+06, : Factors or characters are not allowed in physical position.

[YinLiLin]

If you are trying to do GWAS using Bayes model, please make sure that all the physical positions in the map information should be in digital values, any character is unacceptable.