patternMarkers {CoGAPS}R Documentation

compute pattern markers statistic

Description

calculate the most associated pattern for each gene

Usage

patternMarkers(object, threshold = "all", lp = NA)

## S4 method for signature 'CogapsResult'
patternMarkers(object, threshold = "all",
  lp = NA)

Arguments

object

an object of type CogapsResult

threshold

the type of threshold to be used. The default "all" will distribute genes into pattern with the lowest ranking. The "cut" thresholds by the first gene to have a lower ranking, i.e. better fit to, a pattern.

lp

a vector of weights for each pattern to be used for finding markers. If NA markers for each pattern of the A matrix will be used.

Value

By default a non-overlapping list of genes associated with each lp. If full=TRUE a data.frame of genes rankings with a column for each lp will also be returned.


[Package CoGAPS version 3.4.0 Index]