binarize: Binarize
In biclust: BiCluster Algorithms

binarize

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)

biclust documentation built on May 31, 2023, 6:18 p.m.