rewiring_test {TraRe} | R Documentation

## Generate stats for the rewiring method.

### Description

When performing the rewiring test, some stats must be generated in order to proceed with the rewiring method. `dave_test()` performs a permutation test from a data matrix and a group membership. This function is used in the `runrewiring()` method.

### Usage

    rewiring_test(x, grp, perm = 500)

    rewiring_test_pair_detail(x, grp, perm = 500)

### Arguments

`x` | data matrix containing subjects as rows and genes as columns.
`grp` | array indicating the subject group membership.
`perm` | number of permutations for the test.

### Value

list containing the pvalue associated to the rewiring test, the initial t-stat and the t-stat after the permutation test.

### Examples

      ## We are going to generate a random matrix `x` and `grp` for the example.
      ## We will use 40 samples and 100 genes. First 25 samples will belong to one group
      ## and the rest (15) to the other.

      mat <- matrix(stats::rnorm(40*100),40,100)
      group_m <- c(rep(1,25),rep(0,15))

      ## Note: the `rewiring_test()` works with group membership (1,2) instead of (0,1)

      results <- rewiring_test(x=mat,grp=1+group_m)

[Package TraRe version 1.2.0 Index]