fisher_exact {structToolbox} | R Documentation

## fisher_exact class

### Description

Fisher's exact test (FET). Applies FET for all features in a DatasetExperiment.

### Usage

    fisher_exact(alpha = 0.05, mtc = "fdr", factor_name, factor_pred, ...)

### Arguments

`alpha` | the p-value threshold to declare a result 'significant'
`mtc` | multiple test correction method
`factor_name` | the sample_meta column to use
`factor_pred` | A data.frame, with a factor of predicted group labels to compare with factor_name. Can be a data frame with a factor of predictions for each feature.'
`...` | additional slots and values passed to struct_class

### Value

A struct model with functions for applying fisher exact test.

### Examples

    # load some data
    D=MTBLS79_DatasetExperiment()

    # prepare predictions based on NA
    pred=as.data.frame(is.na(D$data))
    pred=lapply(pred,factor,levels=c(TRUE,FALSE))
    pred=as.data.frame(pred)

    # apply method
    M = fisher_exact(alpha=0.05,mtc='fdr',factor_name='class',factor_pred=pred)
    M=model_apply(M,D)

[Package structToolbox version 1.0.1 Index]