binarize {biclust} | R Documentation

## Binarize

### Description

Methods to convert a real matrix to a binary matrix.

### Usage

    binarize(x, threshold=NA)
    binarizeByPercentage(x,percentage, error=0.2, gap=0.1)
    densityOnes(x)

### Arguments

`x` | The data matrix to be binarized.
`threshold` | Threshold used to binarize. Values over threshold will be set to 1, the rest to 0. If threshold is NA, median is used as threshold. Default NA.
`percentage` | Percentage of ones against zeros desired in the binary matrix.
`error` | Percentage of ones against zeros in the final matrix will be in [percentage-error, percentage+error]. Default 0.2
`gap` | Value used for incremental search of threshold. Default 0.1

### Details

The `binarize` function returns a matrix binarized by input threshold, or by the median if no threshold is given.

The `binarizeByPercentage` function returns a matrix binarize by input percentage, given as desired density of ones against zeros.

The `densityOnes` function returns the percentage of ones against zeros in a logical matrix

### Author(s)

Rodrigo Santamaria rodri@usal.es

### Examples

      data(BicatYeast)
      m1=binarize(BicatYeast)
      m2=binarize(BicatYeast, 0.2)
      m3=binarizeByPercentage(BicatYeast, 5)
      densityOnes(m3)
      densityOnes(m2)
      densityOnes(m1)
      drawHeatmap(BicatYeast)
      drawHeatmap(m1)
      drawHeatmap(m2)
      drawHeatmap(m3)

[Package biclust version 0.8.1 Index]