getFitnesses_entropy: Entropy-based Bicluster Fitness Function

Description Usage Arguments Details Value Author(s)

Description

A fitness function for the GABi biclustering framework, based on the principle that the less likely a bicluster would be observed by chance, the more interesting it is to discover that bicluster.

Usage

1

Arguments

chr

Numeric vector representing a GA solution to the biclustering problem (i.e. a subset of the columns from x across which to look for the pattern).

Details

A fitness function is fundamental to the success of a GA. In this case, getFitnesses.entropy evaluates the desirability of biclusters by estimating the probability of a given selection of the columns from dataset x (argument for function GABi) displaying a consistent block of 1s involving the features that are observed to fit this pattern. Makes use of fitnessArgs a list of parameters in the environment of execution of the biclustering function GABi. Notably, the element featureWeights is a numeric vector encoding the probability of any randomly selected column of the input matrix x having a high value of the corresponding row. This is used in the entropy calculation for the corresponding bicluster. And the element consistency is used to apply a stringency threshold for selecting features (i.e. only those with the proportion of high values across the subset of samples being greater than consistency).

Value

Numeric value representing fitness score for the solution encoded by chr.

Author(s)

Ed Curry [email protected]


GABi documentation built on May 1, 2019, 8:19 p.m.