classclustermeds: Gets matrices of medians for each individual sample for all...

In mineCitrus: Extract and Analyze Median Molecule Intensity from 'citrus' Output

Description

Gets matrices of medians for each individual sample for all measured parameters for all clusters

Usage

classclustermeds(citrus.foldFeatureSet, citrus.foldClustering,
  citrus.combinedFCSSet, groupsizes, meds)

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
citrus.combinedFCSSet	loaded from citrusClustering.RData file generated by Citrus run
groupsizes	list of sizeso f the groups run in Citrus, in order of the selection for citrus run
meds	The names of the columns from citrus.combinedFCSSet$data of interest to extract medians for

Value

Returns a list of matrices with columns corresponding to selected features and rows corresponding to sample groups; each list element corresponds to data for a different cluster

Examples

library(mineCitrus)
data("citrus.combinedFCSSet")
data("citrus.foldClustering")
data("citrus.foldFeatureSet")
meds<-allmeds(citrus.combinedFCSSet=citrus.combinedFCSSet,
              citrus.foldClustering=citrus.foldClustering,
              citrus.foldFeatureSet=citrus.foldFeatureSet)
medians<-classclustermeds(citrus.foldFeatureSet,citrus.foldClustering,
                          citrus.combinedFCSSet,groupsizes=c(10,10),meds=meds)

mineCitrus documentation built on May 2, 2019, 1:27 p.m.