Tropical Geometry Tools for Machine Learning
Calculate the tropical determinant of a square matrix.
Calculate the tropical Fermat-Weber point
Calculate the tropical distance to a max-tropical hyperplane
Vector to equidistant tree
Calculate a minimum enclosing ball for a tropical polytope
Normalize a phylogenetic tree
Normalize a point or set of points in the tropical projective torus
Nearest neighbor bandwidth calculation
Ratio of within and between tropical measures for tropical hierarchica...
Ratio of within and between tropical measures for k-means clusters
Create a phylogenetic tree from an ultrametric
2D or 3D rendering of max-plus or min-plus tropical hyperplane
Remove all tentacles from a tropical simplex
Draw a 2-D or 3-D tropical polytope
Fermat-Weber point numerical solver
Modified Fermat-Weber point numerical solver for ultrametrics
Gaussian-like Sampling on a max- or min-plus tropical line segment
Uniformly sample from a max-plus tropical line segment
Calculate the center point and radius of the maximum inscribed ball fo...
Sigmoid function
Tropical cluster betweeness measure for each cluster in a set of hiera...
Tropical cluster betweeness measure for a each of a set of k-means der...
Sample k equally spaced points on a max- or min-plus tropical line seg...
Projections of points onto a tropical triangle
Estimated probability for binary class assignment
Project a point on the tropical projective torus onto a tropical polyt...
Constructs the dissimilarity matrix for a set of ultrametrics
K-means clustering over the tropical projective torus
Construct a max- or min-plus tropical line segment between two points
TML: Tropical Geometry Tools for Machine Learning
Tropical Machine Learning in R
Phylogenetic tree to vector
Visualize a Tropical ball in 2D or 3D
Tropical within-cluster measure
Compute the tropical distance
Tropical Logistic Regression
Plotting PCA-derived tropical triangles
Estimate the volume of a tropical polytope
Calculate the minimum or entire generating vertex set of a tropical ba...
Centroid-based sampling using Metropolis filter
Tropical centroid-based sampling about a center of mass
Agglomerative (AGNES) tropical hierarchical clustering
Tropical Kernel Density Estimation of Phylogenetic Trees
Tropical principal component analysis (PCA) on over tropical projectiv...
Hit-and-Run Sampler for the space of ultrametrics
Vertex HAR with extrapolation (VHE) MCMC with uniform target distribut...
Suite of tropical geometric tools for use in machine learning applications. These methods may be summarized in the following references: Yoshida, et al. (2022) <doi:10.2140/astat.2023.14.37>, Barnhill et al. (2023) <doi:10.48550/arXiv.2303.02539>, Barnhill and Yoshida (2023) <doi:10.3390/math11153433>, Aliatimis et al. (2023) <doi:10.1007/s11538-024-01327-8>, Yoshida et al. (2022) <doi:10.1109/TCBB.2024.3420815>, and Yoshida et al. (2019) <doi:10.1007/s11538-018-0493-4>.