Usage
LASSO(x, y, family = c("gaussian", "binomial", "poisson", "multinomial", "cox"),
alpha = 1, nlambda = 100, lambda.min.ratio, standardize = TRUE,
size.max, a = 2, npermutation = 0, npermutation.max, min.nonsignificant.counts)
Arguments
x
Genotype matrix, each row as an individual and each column as a snp
family
Family: gaussian, binomial, poisson, multinomial, and cox
alpha
alpha = 1 for LASSO, see glmnet
lambda.min.ratio
see glmnet
size.max
Maximum number of variants included
a
Penalty parameter for information criterion, a=2 for AIC.
npermutation
Number of permutation, if less than 1, the permutation will not be run.
npermutation.max
Maximum permutation
min.nonsignificant.counts
Minimum nonsignificant counts