SNFtool: Similarity Network Fusion
Version 2.2

Similarity Network Fusion takes multiple views of a network and fuses them together to construct an overall status matrix. The input to our algorithm can be feature vectors, pairwise distances, or pairwise similarities. The learned status matrix can then be used for retrieval, clustering, and classification.

Browse man pages Browse package API and functions Browse package files

AuthorBo Wang, Aziz Mezlini, Feyyaz Demir, Marc Fiume, Zhuowen Tu, Michael Brudno, Benjamin Haibe-Kains, Anna Goldenberg
Date of publication2014-09-08 23:16:27
MaintainerBo Wang <wangbo.yunze@gmail.com>
LicenseGPL
Version2.2
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("SNFtool")

Man pages

affinityMatrix: Affinity matrix calculation
calNMI: Mutual Information calculation
chiDist2: Pairwise Chi-squared distances
concordanceNetworkNMI: Concordance Network NMI calculation
Data1: Data1
Data2: Data2
dataL: dataL
displayClusters: Plot given similarity matrix by clusters
displayClustersWithHeatmap: Display the similarity matrix by clusters with some sample...
dist2: Pairwise Euclidean distances
estimateNumberOfClustersGivenGraph: Estimate Number Of Clusters Given Graph
getColorsForGroups: Obtaining a vector of colors from a numeric vector of group
groupPredict: Group Predict
internal: Internal SNFtool Functions
label: Labels for dataL dataset
rankFeaturesByNMI: Rank Features by NMI
SNF: Similarity Network Fusion
spectralClustering: Spectral Clustering
standardNormalization: Standard Normalization

Functions

.csPrediction Man page
.discretisation Man page
.discretisationEigenVectorData Man page
.dominateset Man page
.entropy Man page
.mutualInformation Man page
Data1 Man page
Data2 Man page
SNF Man page Source code
affinityMatrix Man page Source code
calNMI Man page Source code
chiDist2 Man page Source code
concordanceNetworkNMI Man page Source code
csPrediction Source code
dataL Man page
discretisation Source code
discretisationEigenVectorData Source code
displayClusters Man page Source code
displayClustersWithHeatmap Man page Source code
dist2 Man page Source code
dominateset Source code
entropy Source code
estimateNumberOfClustersGivenGraph Man page Source code
getColorsForGroups Man page Source code
groupPredict Man page Source code
label Man page
mutualInformation Source code
rankFeaturesByNMI Man page Source code
repmat Source code
spectralClustering Man page Source code
standardNormalization Man page Source code

Files

NAMESPACE
data
data/label.rda
data/Data1.rda
data/dataL.rda
data/Data2.rda
R
R/getColorsForGroups.R
R/rankFeaturesByNMI.R
R/standardNormalization.R
R/affinityMatrix.R
R/dist2.R
R/calNMI.R
R/internal.R
R/SNF.R
R/concordanceNetworkNMI.R
R/displayClusters.r
R/estimateNumberOfClustersGivenGraph.R
R/spectralClustering.r
R/displayClustersWithHeatmap.R
R/groupPredict.r
R/chiDist2.R
MD5
README
DESCRIPTION
man
man/rankFeaturesByNMI.Rd
man/concordanceNetworkNMI.Rd
man/dist2.Rd
man/standardNormalization.Rd
man/internal.Rd
man/SNF.Rd
man/calNMI.Rd
man/displayClusters.Rd
man/Data1.Rd
man/estimateNumberOfClustersGivenGraph.Rd
man/chiDist2.Rd
man/getColorsForGroups.Rd
man/spectralClustering.Rd
man/affinityMatrix.Rd
man/Data2.Rd
man/displayClustersWithHeatmap.Rd
man/groupPredict.Rd
man/dataL.Rd
man/label.Rd
SNFtool documentation built on May 20, 2017, 1:30 a.m.