clustermeds: Gets matrix of medians for desired measured features for all...

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

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)

athrom/mineCitrus documentation built on May 20, 2019, 8:01 p.m.