SNFtool: Similarity Network Fusion

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.

Author
Bo Wang, Aziz Mezlini, Feyyaz Demir, Marc Fiume, Zhuowen Tu, Michael Brudno, Benjamin Haibe-Kains, Anna Goldenberg
Date of publication
2014-09-08 23:16:27
Maintainer
Bo Wang <wangbo.yunze@gmail.com>
License
GPL
Version
2.2

View on CRAN

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

Files in this package

SNFtool
SNFtool/NAMESPACE
SNFtool/data
SNFtool/data/label.rda
SNFtool/data/Data1.rda
SNFtool/data/dataL.rda
SNFtool/data/Data2.rda
SNFtool/R
SNFtool/R/getColorsForGroups.R
SNFtool/R/rankFeaturesByNMI.R
SNFtool/R/standardNormalization.R
SNFtool/R/affinityMatrix.R
SNFtool/R/dist2.R
SNFtool/R/calNMI.R
SNFtool/R/internal.R
SNFtool/R/SNF.R
SNFtool/R/concordanceNetworkNMI.R
SNFtool/R/displayClusters.r
SNFtool/R/estimateNumberOfClustersGivenGraph.R
SNFtool/R/spectralClustering.r
SNFtool/R/displayClustersWithHeatmap.R
SNFtool/R/groupPredict.r
SNFtool/R/chiDist2.R
SNFtool/MD5
SNFtool/README
SNFtool/DESCRIPTION
SNFtool/man
SNFtool/man/rankFeaturesByNMI.Rd
SNFtool/man/concordanceNetworkNMI.Rd
SNFtool/man/dist2.Rd
SNFtool/man/standardNormalization.Rd
SNFtool/man/internal.Rd
SNFtool/man/SNF.Rd
SNFtool/man/calNMI.Rd
SNFtool/man/displayClusters.Rd
SNFtool/man/Data1.Rd
SNFtool/man/estimateNumberOfClustersGivenGraph.Rd
SNFtool/man/chiDist2.Rd
SNFtool/man/getColorsForGroups.Rd
SNFtool/man/spectralClustering.Rd
SNFtool/man/affinityMatrix.Rd
SNFtool/man/Data2.Rd
SNFtool/man/displayClustersWithHeatmap.Rd
SNFtool/man/groupPredict.Rd
SNFtool/man/dataL.Rd
SNFtool/man/label.Rd