├── .Rbuildignore ├── .github └── workflows │ └── rhub.yaml ├── .gitignore ├── DESCRIPTION ├── NAMESPACE ├── NEWS.md ├── R ├── RcppExports.R ├── buildEdgeMatrix.R ├── dbscan.R ├── dendrogram.R ├── hdbscan.R ├── largeVis-package.r ├── largeVis.R ├── optics.R ├── projectKNNs.R ├── projectionTreeSearch.R ├── visualize.R └── zzz.R ├── README.Rmd ├── README.md ├── README_files ├── figure-gfm │ └── clustering-1.png └── figure-markdown_github │ ├── clustering-1.png │ ├── constn-1.png │ ├── draw20ng-1.png │ ├── drawYouTube-1.png │ ├── drawhyperparameters-1.png │ ├── drawiris-1.png │ ├── drawiriscoords-1.png │ ├── drawmanifoldmap-1.png │ ├── drawmnist-1.png │ ├── drawstm-1.png │ ├── drawtdm-1.png │ ├── drawwikidocs-1.png │ ├── drawwikiwords-1.png │ ├── faceImages-1.png │ ├── iris_mkhyperparams-1.png │ ├── max_iters-1.png │ ├── mnistmanifold-1.png │ ├── mnistvis-1.png │ ├── n_trees-1.png │ ├── plotFaceVectors-1.png │ ├── plotpeformance-1.png │ └── tree_threshold-1.png ├── benchmarks.Rmd ├── benchmarks.md ├── benchmarks_files ├── figure-gfm │ └── plotpeformance-1.png └── figure-markdown_github │ ├── constn-1.png │ ├── plotpeformance-1.png │ └── tree_threshold-1.png ├── faceshighres.png ├── inst ├── extdata │ ├── benchmark.R │ └── benchmark.Rda ├── testdata │ ├── badedges.Rda │ ├── badmat.Rda │ ├── dim512.Rda │ ├── glassEdges.Rda │ ├── irisdbscan.Rda │ ├── irisoptics.Rda │ ├── opttest.Rda │ ├── spiral.Rda │ ├── truelof10.Rda │ ├── truelof20.Rda │ ├── wijstuff.Rda │ └── zerotest.rda └── vignettedata │ ├── spiral.Rda │ └── test_wiki.R ├── man ├── as.dendrogram.hdbscan.Rd ├── buildEdgeMatrix.Rd ├── buildWijMatrix.Rd ├── ggManifoldMap.Rd ├── gplot.Rd ├── hdbscan.Rd ├── largeVis-package.Rd ├── largeVis.Rd ├── lof.Rd ├── lv_dbscan.Rd ├── lv_optics.Rd ├── manifoldMap.Rd ├── manifoldMapStretch.Rd ├── projectKNNs.Rd ├── randomProjectionTreeSearch.Rd └── sgdBatches.Rd ├── src ├── .gitignore ├── Makevars ├── RcppExports.cpp ├── alias.h ├── checkfunctions.cpp ├── dbscan.cpp ├── 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