Man pages for HoujieWang/Rtropical
Data Analysis Tools over Space of Phylogenetic Trees Using Tropical Geometry
| all_trees | Simulated Tree Data with Different Proximity Parameter Value |
| apicomplexa | Apicomplexa gene trees sample data set. |
| as.matrix.multiPhylo | Vectorize a Set of Phylognetic Trees |
| assignment_finder | Efficient Finder of Best Assignment |
| as.vector.phylo | Vectorize a Phylogenetic Tree |
| coef.cv.tropsvm | Extract Optimal Tropical Hyperplane from a cv.tropsvm object |
| coef.tropsvm | Extract Optimal Tropical Hyperplane from a tropsvm object |
| cv.tropsvm | Cross-Validation for Tropical Support Vector Machines |
| dets | Tropical Determinants for Small Matrices |
| linsp_to_poly | Convert Tropical Linear Space to Convex Hull |
| lungfish | Coelacanths genome and transcriptome data |
| make.matrix | Function to recreate the upper triangular matrix |
| plot.troppca | Plot the Tropical Principal Components with Data Projections |
| polytope_iso | Dimension Reduction by Isometry |
| predict.cv.tropsvm | Predict Method for Tropical Support Vector Machines based on... |
| predict.tropsvm | Predict Method for Tropical Support Vector Machines |
| read.nexus.to.data.matrix | Read NEXUS-formatted trees from two categories into a data... |
| read.tree.to.data.matrix | Read Newick-formatted trees in two categories into a data... |
| sim_trees | Simulated Tree Data |
| summary.cv.tropsvm | Summarize an Analysis of Cross-Validated Tropical Support... |
| tropdet | Tropical Determinant of a Matrix |
| tropFW | Tropical Fermat-Weber Point |
| troppca.linsp | Tropical Principal Component Analysis by Tropical Linear... |
| troppca.linsp2poly | Tropical Principal Component Analysis by Polytope Converted... |
| troppca.obj | Compute Tropical PCA Objective |
| troppca.poly | Tropical Principal Component Analysis by Tropical Polytope |
| tropproj.linsp | Projection on Tropical Linear Space |
| tropproj.poly | Projection on Tropical Polytope |
| tropseg | Compute Tropical Line Segment |
| tropsvm | Tropical Support Vector Machines |
| tropsvm_helper | Helper for 'cv.tropsvm' |
