Man pages for TML
Tropical Geometry Tools for Machine Learning
| bw.nn | Nearest neighbor bandwidth calculation |
| cluster.ratio_HC | Ratio of within and between tropical measures for tropical... |
| cluster.ratio_KM | Ratio of within and between tropical measures for k-means... |
| convert.to.tree | Create a phylogenetic tree from an ultrametric |
| draw_thyper | 2D or 3D rendering of max-plus or min-plus tropical... |
| draw.tpolytope | Draw a 2-D or 3-D tropical polytope |
| FWpoint.numerical | Fermat-Weber point numerical solver |
| FWpoint.regularization | Modified Fermat-Weber point numerical solver for ultrametrics |
| HAR.TLineSeg | Uniformly sample from a max-plus tropical line segment |
| HAR.TLineSeg.centroid | Gaussian-like Sampling on a max- or min-plus tropical line... |
| lung_fish | Phylogenetic trees based on lung fish data |
| max_ins.ball | Calculate the center point and radius of the maximum... |
| min_enc.ball | Calculate a minimum enclosing ball for a tropical polytope |
| normalize | Normalize a point or set of points in the tropical projective... |
| normaliz.tree | Normalize a phylogenetic tree |
| over_bet_HC | Tropical cluster betweeness measure for each cluster in a set... |
| over_bet_KM | Tropical cluster betweeness measure for a each of a set of... |
| Points.TLineSeg | Sample k equally spaced points on a max- or min-plus tropical... |
| pre.pplot.pro | Projections of points onto a tropical triangle |
| prob.class | Estimated probability for binary class assignment |
| project.pi | Project a point on the tropical projective torus onto a... |
| pw.trop.dist | Constructs the dissimilarity matrix for a set of ultrametrics |
| rounding | Remove all tentacles from a tropical simplex |
| sigmoid | Sigmoid function |
| Sim_points | Simulated points over the tropical projective torus |
| Sim_Trees1 | Six data sets of phylogenetic trees data simulated from the... |
| Sim_Trees2 | Six data sets of phylogenetic trees data simulated from the... |
| tdets | Calculate the tropical determinant of a square matrix. |
| TKmeans | K-means clustering over the tropical projective torus |
| TLineSeg | Construct a max- or min-plus tropical line segment between... |
| TML | Tropical Machine Learning in R |
| TML-package | TML: Tropical Geometry Tools for Machine Learning |
| tree.to.vector | Phylogenetic tree to vector |
| Trop_ball | Visualize a Tropical ball in 2D or 3D |
| trop.dist | Compute the tropical distance |
| trop.FW | Calculate the tropical Fermat-Weber point |
| trop.hyper.dist | Calculate the tropical distance to a max-tropical hyperplane |
| tropical.ball.verts | Calculate the minimum or entire generating vertex set of a... |
| tropical.centroid | Tropical centroid-based sampling about a center of mass |
| tropical.centroid.MH | Centroid-based sampling using Metropolis filter |
| Tropical.HC.AGNES | Agglomerative (AGNES) tropical hierarchical clustering |
| tropical.KDE | Tropical Kernel Density Estimation of Phylogenetic Trees |
| tropical.PCA | Tropical principal component analysis (PCA) on over tropical... |
| trop.logistic.regression | Tropical Logistic Regression |
| trop.tri.plot.w.pts | Plotting PCA-derived tropical triangles |
| trop.Volume | Estimate the volume of a tropical polytope |
| trop_wi_dist | Tropical within-cluster measure |
| Ultrametrics.HAR | Hit-and-Run Sampler for the space of ultrametrics |
| vector.to.equidistant.tree | Vector to equidistant tree |
| VE.HAR | Vertex HAR with extrapolation (VHE) MCMC with uniform target... |
