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| paleotree-package | paleotree: Paleontological and Phylogenetic Analyses of Evolution |
| addTermBranchLength | Modify or Drop Terminal Branches of Various Types |
| binTimeData | Bin Temporal Ranges in Discrete Intervals |
| bin_cal3TimePaleoPhy | Three Rate Calibrated Timescaling of Paleo-Phylogenies |
| bin_timePaleoPhy | Timescaling of Paleo-Phylogenies |
| cal3TimePaleoPhy | Three Rate Calibrated Timescaling of Paleo-Phylogenies |
| candleTaxa | Simulating Extinct Clades of Monophyletic Taxa |
| cladogeneticTraitCont | Simulate Cladogenetic Trait Evolution |
| compareNodeAges | Comparing the Time-Scaling of Trees |
| compareTermBranches | Comparing the Time-Scaling of Trees |
| compareTimescaling | Comparing the Time-Scaling of Trees |
| deadTree | Simulating Extinct Clades of Monophyletic Taxa |
| degradeTree | Randomly collapse nodes on a phylogeny |
| depthRainbow | Paint Tree Branch Depth by Color |
| dropExtant | Modify or Drop Terminal Branches of Various Types |
| dropExtinct | Modify or Drop Terminal Branches of Various Types |
| dropZLB | Modify or Drop Terminal Branches of Various Types |
| expandTaxonTree | Extrapolating Lower-Level Taxon Phylogenies from Higher-Level Taxon Trees |
| fixRootTime | Modify or Drop Terminal Branches of Various Types |
| freqRat | Frequency Ratio Method for Estimating Sampling Probability |
| getSampProbDisc | Fit Models of Sampling Probability to Discrete-Interval Taxon Ranges |
| getSampRateCont | Fit Models of Sampling Rates to Continuous-Time Taxon Ranges |
| multiDiv | Calculating Diversity Curves Across Multiple Datasets |
| paleotree | paleotree: Paleontological and Phylogenetic Analyses of Evolution |
| phyloDiv | Diversity Curves |
| plotMultiDiv | Calculating Diversity Curves Across Multiple Datasets |
| plotTraitgram | Plot a Traitgram for Continuous Traits |
| pqsRate2sProb | Converting Sampling Estimates |
| probAnc | Converting Sampling Estimates |
| qsProb2Comp | Converting Sampling Estimates |
| qsRate2Comp | Converting Sampling Estimates |
| reverseList | Reverse List Structure |
| rootSplit | Split Tip Taxa by Root Divergence |
| sampleRanges | Sampling Taxon Ranges |
| simCandleTaxa | Simulating Extinct Clades of Monophyletic Taxa |
| simFossilTaxa | Simulating Taxa in the Fossil Record |
| simFossilTaxa_SRCond | Simulating Taxa in the Fossil Record, Conditioned on Sampling Rate |
| simPaleoTrees | Simulating Un-Conditioned Trees of Fossil Taxa |
| simTermTaxa | Simulating Extinct Clades of Monophyletic Taxa |
| simTermTaxaAdvanced | Simulating Extinct Clades of Monophyletic Taxa |
| sProb2sRate | Converting Sampling Estimates |
| sRate2sProb | Converting Sampling Estimates |
| taxa2cladogram | Convert Simulated Taxon Data into a Cladogram |
| taxa2phylo | Convert Simulated Taxon Data into a Phylogeny |
| taxicDivCont | Diversity Curves |
| taxicDivDisc | Diversity Curves |
| termTaxa | Simulating Extinct Clades of Monophyletic Taxa |
| timeLadderTree | Resolve Polytomies by Order of First Appearance |
| timePaleoPhy | Timescaling of Paleo-Phylogenies |
| timeSliceTree | Time-Slicing a Phylogeny |
| trueCandle | Simulating Extinct Clades of Monophyletic Taxa |
| trueTermTaxaTree | Simulating Extinct Clades of Monophyletic Taxa |
| unitLengthTree | Scale Tree to Unit-Length |