optTrain | R Documentation |
This function is designed for determining optimal training set.
optTrain( geno, cand, n.train, subpop = NULL, test = NULL, method = "rScore", min.iter = NULL )
geno |
A numeric matrix of principal components (rows: individuals; columns: PCs). |
cand |
An integer vector of which rows of individuals are candidates of the training set in the geno matrix. |
n.train |
The size of the target training set. This could be determined with the help of the ssdfgp function provided in this package. |
subpop |
A character vector of sub-population's group name. The algorithm will ignore the population structure if it remains NULL. |
test |
An integer vector of which rows of individuals are in the test set in the geno matrix. The algorithm will use an un-target method if it remains NULL. |
method |
Choices are rScore, PEV and CD. rScore will be used by default. |
min.iter |
Minimum iteration of all methods can be appointed. One should always check if the algorithm is converged or not. A minimum iteration will set by considering the candidate and test set size if it remains NULL. |
This function will return 3 information including OPTtrain (a vector of chosen optimal training set), TOPscore (highest scores of before iteration), and ITERscore (criteria scores of each iteration).
Jen-Hsiang Ou
data(geno) ## Not run: optTrain(geno, cand = 1:404, n.train = 100)
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