patternMarkers-methods: compute pattern markers statistic

Description Usage Arguments Value Examples

Description

calculate the most associated pattern for each gene

Usage

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patternMarkers(object, threshold = "all", lp = NA, axis = 1)

## S4 method for signature 'CogapsResult'
patternMarkers(object, threshold = "all", lp = NA, axis = 1)

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.

axis

either 1 or 2, specifying if pattern markers should be calculated using the rows of the data (1) or the columns of the data (2)

Value

By default a non-overlapping list of genes associated with each lp.

Examples

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Example output



CoGAPS documentation built on Nov. 8, 2020, 5:02 p.m.