outputRepresentativeNetworks_topEdges

data matrix with first column being the sample ID

dataMatrix

subpopulationLabels

the number of edges to draw for each subpopulation mutual information network

threshold

Outputs the representative/clade networks (plots and summary vectors) for subpopulations with size larger than a desired threshold. Saves the networks and the data matrices without the smaller subpopulations.

Implements partition-assisted clustering and multiple alignments of networks. It 1) utilizes partition-assisted clustering to find robust and accurate clusters and 2) discovers coherent relationships of clusters across multiple samples. It is particularly useful for analyzing single-cell data set. Please see Li et al. (2017) <doi:10.1371/journal.pcbi.1005875> for detail method description.

Ye Li

Partition-Assisted Clustering and Multiple Alignments of
Networks

outputRepresentativeNetworks_topEdges function

Outputs the representative/clade networks (plots and summary vectors) for subpopulations with size larger than a desired threshold. Saves the networks and the data matrices without the smaller subpopulations. — outputRepresentativeNetworks_topEdges

Outputs the representative/clade networks (plots and summary vectors) for subpopulations with size larger than a desired threshold. Saves the networks and the data matrices without the smaller subpopulations.

outputRepresentativeNetworks_topEdges: Outputs the representative/clade networks (plots and summary vectors) for subpopulations with size larger than a desired threshold. Saves the networks and the data matrices without the smaller subpopulations.

Description

Usage

Arguments