cellMatchR {CoGAPS}R Documentation

cellMatchR

Description

cellMatchR

Usage

cellMatchR(Atot, nSets, cnt, minNS = NA, maxNS = NA, ignore.NA = FALSE,
  bySet = FALSE, plotDen = FALSE, ...)

Arguments

Atot

a matrix containing the total by set estimates of Pmean output from reOrderBySet

nSets

number of parallel sets used to generate Atot

cnt

number of branches at which to cut dendrogram

minNS

minimum of individual set contributions a cluster must contain

maxNS

maximum of individual set contributions a cluster must contain

ignore.NA

logical indicating whether or not to ignore NAs from potential over dimensionalization. Default is FALSE.

bySet

logical indicating whether to return list of matched set solutions from Atot

plotDen

plot

...

additional parameters for agnes

Value

a matrix of concensus patterns by samples. If bySet=TRUE then a list of the set contributions to each concensus pattern is also returned.


[Package CoGAPS version 3.0.2 Index]