R: Diagnostics F Statistiics Visualization

diagnosticPlot2 {biclust} | R Documentation

## Diagnostics F Statistiics Visualization

### Description

Plots distributions of bootstrap replicates of F-statistics for row, column and multiplicative effects obtained from `diagnosticTest` (when `save_F=TRUE`). Contains an option to highlight the observed statistics.

### Usage

    diagnosticPlot2(diagnosticTest, number = 1, StatVal = TRUE,
      binwidth = NULL)

### Arguments

`diagnosticTest` | output of `diagnosticTest` with `save_F=TRUE` which contains the F-statistics and sampling replicates.
`number` | Number of which BC to plot. This needs to be one of the Biclusters requested in in `diagnosticTest`.
`StatVal` | Boolean value to draw the observed statistic on the distribution plots.
`binwidth` | The width of the bins.

### Value

Returns a `ggplot` object.

### Author(s)

Ewoud De Troyer

### Examples

    ## Not run:
    #Random matrix with embedded bicluster (with multiplicative effect)
    test <- matrix(rnorm(5000),100,50)
    roweff <- sample(1:5,10,replace=TRUE)
    coleff <- sample(1:5,10,replace=TRUE)
    test[11:20,11:20] <- test[11:20,11:20] +
      matrix(coleff,nrow=10,ncol=10,byrow=TRUE) +
      matrix(roweff,nrow=10,ncol=10) +
      roweff %*% t(coleff)

    #Apply Plaid Biclustering
    res <- biclust(test, method=BCPlaid())

    #Apply default diagnosticTest
    out <- diagnosticTest(BCresult=res, data=test, save_F=TRUE, number=1,
                          statistics=c("F","Tukey","ModTukey","Tusell","Mandel","LBI","JandG"),
                          samplingtypes=c("Permutation","SemiparPerm","SemiparBoot",
                          "PermutationCor","SamplingCor","NormSim"))

    #Plot Distributions
    diagnosticPlot2(out,number=1)

    ## End(Not run)

[Package biclust version 2.0.2 Index]