Hello,
I got an error message saying
Error in lognet(x, is.sparse, ix, jx, y, weights, offset, alpha, nobs, :
NA/NaN/Inf in foreign function call (arg 5)
when I try to analysis a binary trait using glmnet(R) by running the
following code
library(glmnet)
Xori <- read.table("c:\\SNP.txt", sep='\t');
Yori <- read.table("c:\\Trait.txt", sep=',');
Y=as.matrix(Yori);
X=t(as.matrix(Xori));
fit1=glmnet(X, Y, family="binomial");
in the above, X is a matrix with values 1, 0, and -1; Y is a one column
matrix with values 1 and 0.
I know how to analysis continuous traits using glmnet, but I have no idea
about how to do it for binary dependent variables. I will appreciate it if
you would give me any suggestion about this error or provide an example code
for handling binary trait using glmnet.
Looking forward for your kindly help.
Thanks!
Noah
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