TrackCluster: Track a cluster or a selection of objects across multiple...

In MosaiClusteR: An Umbrella Framework for Multi-Source and Multi-Omics Clustering

Track a cluster or a selection of objects across multiple methods

Description

TrackCluster follows a selection of objects or a specific cluster across a sequence of clustering results, recording how the objects are distributed over the clusters of each method and optionally producing tracking plots.

Usage

TrackCluster(
  List,
  Selection,
  nrclusters = NULL,
  followMaxComps = FALSE,
  followClust = TRUE,
  fusionsLog = TRUE,
  weightclust = TRUE,
  names = NULL,
  selectionPlot = FALSE,
  table = FALSE,
  completeSelectionPlot = FALSE,
  ClusterPlot = FALSE,
  cols = NULL,
  legendposx = 0.5,
  legendposy = 2.4,
  plottype = "sweave",
  location = NULL
)

Arguments

List	A list of clustering outputs to be compared. The first element of the list is used as the reference in ReorderToReference.
Selection	Either a character vector of objects, or a numeric cluster number.
nrclusters	The number of clusters to cut the dendrogram in. Default is NULL.
followMaxComps	Logical. Whether to follow the cluster with the maximum number of objects. Default is FALSE.
followClust	Logical. Whether to follow the cluster of interest. Default is TRUE.
fusionsLog	Logical. Indicator for the fusion of clusters. Default is TRUE.
weightclust	Logical. For the outputs of CEC, WeightedClust or WeightedSimClust, if TRUE only the result of the Clust element is considered. Default is TRUE.
names	Optional. Names of the methods. Default is NULL.
selectionPlot	Logical. Whether to produce the selection plot. Default is FALSE.
table	Logical. Whether to produce a table of the tracking. Default is FALSE.
completeSelectionPlot	Logical. Whether to produce the complete selection plot. Default is FALSE.
ClusterPlot	Logical. Whether to produce the cluster plot. Default is FALSE.
cols	The colors to use in the plots. Default is NULL.
legendposx	The x-coordinate of the legend. Default is 0.5.
legendposy	The y-coordinate of the legend. Default is 2.4.
plottype	Should be one of "pdf","new" or "sweave". Default is "sweave".
location	If plottype is "pdf", a location should be provided. Default is NULL.

Value

A list with one element per method describing how the selection is distributed across the clusters, and optionally a tracking table.

Examples

## Not run: 
data(fingerprintMat)
data(targetMat)

MCF7_F = Cluster(fingerprintMat,type="data",distmeasure="tanimoto",normalize=FALSE,
method=NULL,clust="agnes",linkage="flexible",gap=FALSE,maxK=55,StopRange=FALSE)
MCF7_T = Cluster(targetMat,type="data",distmeasure="tanimoto",normalize=FALSE,
method=NULL,clust="agnes",linkage="flexible",gap=FALSE,maxK=55,StopRange=FALSE)

L=list(MCF7_F,MCF7_T)
MCF7_Track=TrackCluster(List=L,Selection=4,nrclusters=7,followMaxComps=FALSE,
followClust=TRUE,selectionPlot=TRUE,table=TRUE,cols=NULL)

## End(Not run)

MosaiClusteR documentation built on Oct. 25, 2026, 1:08 a.m.