├── .Rbuildignore ├── .gitignore ├── DESCRIPTION ├── MD5 ├── NAMESPACE ├── R ├── SNF.R ├── affinityMatrix.R ├── calNMI.R ├── chiDist2.R ├── concordanceNetworkNMI.R ├── datasets.R ├── displayClusters.r ├── displayClustersWithHeatmap.R ├── dist2.R ├── estimateNumberOfClustersGivenGraph.R ├── getColorsForGroups.R ├── groupPredict.r ├── internal.R ├── rankFeaturesByNMI.R ├── robustSimilarity.R ├── spectralClustering.r └── standardNormalization.R ├── README-unnamed-chunk-6-1.png ├── README-unnamed-chunk-6-2.png ├── README-unnamed-chunk-7-1.png ├── README.Rmd ├── README.md ├── data ├── Data1.rda ├── Data2.rda ├── dataL.rda └── label.rda ├── man ├── Data1.Rd ├── Data2.Rd ├── SNF.Rd ├── affinityMatrix.Rd ├── calNMI.Rd ├── chiDist2.Rd ├── concordanceNetworkNMI.Rd ├── dataL.Rd ├── displayClusters.Rd ├── displayClustersWithHeatmap.Rd ├── dist2.Rd ├── estimateNumberOfClustersGivenGraph.Rd ├── getColorsForGroups.Rd ├── groupPredict.Rd ├── label.Rd ├── quantize.Rd ├── rankFeaturesByNMI.Rd ├── 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