intGenes: Select initial gene list from original data matrix.

In malani: Machine Learning Assisted Network Inference

Description

Train G-1 SVM models in k-fold cross validation scheme to select initial genes list.

Usage

intGenes(dat, grp, nfolds.out = 2, top.per = 0.05)

Arguments

dat	Original gene expression data matrix with G rows (number of genes) and S column (number of samples).
grp	Class labels.
nfolds.out	Outer cross validation number (default is 2).
top.per	All genes are ranked based on their models performance and top.per% of them are selected as initial genes.

Value

Selected initial genes.

Examples

data(malanidata)
int <- intGenes(dat,grp)
print(int$top.genes)

Example output

Loading required package: e1071
[1] 71 58 96 36 95

malani documentation built on May 2, 2019, 12:21 p.m.