| 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)