API for cauphy
Trait Evolution on Phylogenies Using the Cauchy Process
| Global functions | |
|---|---|
| AIC.cauphyfit | Man page |
| AIC.cauphylm | Man page |
| AIC.logLik.cauphyfit | Man page |
| AIC.logLik.cauphylm | Man page |
| ancestral | Man page Source code |
| ancestral.cauphyfit | Man page Source code |
| ancestral.cauphylm | Man page Source code |
| back_transform_values | Source code |
| cauphylm | Man page Source code |
| checkDuplicates | Man page Source code |
| checkTraitTree | Man page Source code |
| check_binary_tree | Man page Source code |
| check_node | Source code |
| check_tree | Man page Source code |
| coef.cauphyfit | Man page Source code |
| coef.cauphylm | Man page Source code |
| compute_vcov | Man page Source code |
| compute_vcov.cauphyfit | Source code |
| compute_vcov.cauphylm | Source code |
| confint.cauphyfit | Man page Source code |
| confint.cauphylm | Man page Source code |
| do_optim | Man page Source code |
| find_modes | Man page Source code |
| findmaxsgrid | Source code |
| fitCauchy | Man page Source code |
| fitCauchy.internal | Man page Source code |
| fit_function | Man page Source code |
| getBounds | Man page Source code |
| getBoundsCauchy | Man page Source code |
| getBoundsLambda | Man page Source code |
| getParamNames | Man page Source code |
| getStartingValues | Man page Source code |
| getStartingValuesCauchy | Man page Source code |
| getStartingValuesLambda | Man page Source code |
| hdi.ancestralCauchy | Man page Source code |
| increment | Man page Source code |
| increment.cauphyfit | Man page Source code |
| increment.cauphylm | Man page Source code |
| initDispersionParameter | Man page Source code |
| initLambdaParameter | Man page Source code |
| initPositionParameter | Man page Source code |
| is.wholenumber | Source code |
| lizards | Man page |
| logDensityTipsCauchy | Man page Source code |
| logLik.cauphyfit | Man page Source code |
| logLik.cauphylm | Man page Source code |
| maxLambda | Man page |
| minusLikelihoodFixedRoot | Man page Source code |
| minusLikelihoodFixedRoot_lm | Man page Source code |
| minusLikelihoodFixedRoot_mu | Man page Source code |
| minusLikelihoodREML | Man page Source code |
| minusLikelihoodRandomRoot | Man page Source code |
| parallel_construction | Source code |
| plot.ancestralCauchy | Man page Source code |
| plot.invisible | Man page Source code |
| plot.profile.cauphyfit | Man page Source code |
| plot_asr | Man page Source code Source code |
| posteriorDensityAncestral | Man page Source code |
| posteriorDensityIncrement | Man page Source code |
| predict.cauphylm | Man page Source code |
| print.cauphyfit | Man page Source code |
| print.cauphylm | Man page Source code |
| printRTreeTest | Man page Source code |
| profile.cauphyfit | Man page Source code |
| rTraitCauchy | Man page Source code |
| reroottip | Man page Source code |
| safe_get | Man page Source code |
| simulateTipsCauchy | Man page Source code |
| transformBranchLengths | Man page Source code |
| transform_values | Source code |
| vcov.cauphyfit | Man page Source code |
| vcov.cauphylm | Man page Source code |
