clustermeds {mineCitrus}

Gets matrix of medians for desired measured features for all clusters meeting threshold requirements specified in Citrus

Description

Gets matrix of medians for desired measured features for all clusters meeting threshold requirements specified in Citrus

Usage

clustermeds(citrus.foldFeatureSet, citrus.foldClustering, medsofinterest,
  citrus.combinedFCSSet)

Arguments

citrus.foldFeatureSet

computed from first two variables using citrus.calculateFoldFeatureSet function from citrus package

citrus.foldClustering

loaded from citrusClustering.RData file generated by Citrus run

medsofinterest

The names of the columns from citrus.combinedFCSSet$data of interest to extract medians for

citrus.combinedFCSSet

loaded from citrusClustering.RData file generated by Citrus run

Value

Returns a matrix with columns corresponding to selected features and rows corresponding to samples

Examples

library(mineCitrus)
data("citrus.combinedFCSSet")
data("citrus.foldClustering")
data("citrus.foldFeatureSet")
medians<-clustermeds(citrus.foldFeatureSet=citrus.foldFeatureSet,
                     citrus.foldClustering=citrus.foldClustering,
                     medsofinterest=c("Red","Blue"),
                     citrus.combinedFCSSet=citrus.combinedFCSSet)