Linear Model Evaluation with Randomized Residuals in a
Permutation Procedure
![[R logo]](../../../doc/html/Rlogo.svg)
![[Up]](../../../doc/html/left.jpg)
![[Top]](../../../doc/html/up.jpg)
Documentation for package ‘RRPP’ version 2.2.0
Help Pages
A B C E F G I K L M N O P Q R S T V
-- A --
| add.trajectories | Plot Function for RRPP |
| add.tree | Plot tool to add phylogenetic trees to ordination plots |
| anova.lm.rrpp | ANOVA for lm.rrpp model fits |
| anova.measurement.error | ANOVA for lm.rrpp model fits used in measurement.error |
-- B --
| betaTest | Test of beta parameters for lm.rrpp model fits |
-- C --
| classify | Deprecated functions in RRPP |
| coef.lm.rrpp | coef for lm.rrpp model fits |
| coef.lmm.rrpp | coef for lmm.rrpp model fits |
| convert2ggplot | Convert RRPP plots to ggplot objects |
-- E --
| effect.size | Obtain Effect-size from a vector of values |
-- F --
| fishy | Simulated Fish Data for Measurement Error Analysis |
| fitted.lm.rrpp | Extract fitted values |
| fixef.lmm.rrpp | fixef for lmm.rrpp model fits |
| flower | Flower Production and Temperature |
| focusMEonSubjects | Plot Function for RRPP |
-- G --
| getANOVAStats | Utility Function for RRPP |
| getModelCov | Utility Function for RRPP |
| getModels | Utility Function for RRPP |
| getPermInfo | Utility Function for RRPP |
| getResCov | Utility Function for RRPP |
| getTerms | Utility Function for RRPP |
-- I --
| ICCstats | Intraclass correlation statistics from an lm.rrpp model fits |
| interSubVar | Reveal the inter-subject variability from a measurement error analysis |
-- K --
| kcomp | K-component analysis |
-- L --
| lm.rrpp | Linear Model Evaluation with a Randomized Residual Permutation Procedure |
| lm.rrpp.ws | Linear Model Evaluation with RRPP performed within subjects |
| lmm.rrpp | Mixed Linear Model Evaluation with RRPP performed within subjects |
| logLik.lm.rrpp | Calculate the log-likelihood of a lm.rrpp fit |
| looCV | Diagnostic cross-validation tool including ordination based on fitted values |
| looCV_table | Table for looCV comparisons |
| lr_test | Likelihood ratio test for a linear model, based on RRPP |
-- M --
| mahal_dist | Calculate the pairwise Mahalanobis distances between observations |
| mammalHR | Mammal Home Range Data |
| mammalHRphy | Phylogenetic Data for the Mammal Home Range Data |
| manova.update | MANOVA update for lm.rrpp model fits |
| measurement.error | Evaluation of measurement error for two or more multivariate measurements, for common research subjects |
| model.comparison | Model Comparisons, in terms of the log-likelihood, covariance trace, or Z-score. |
| model.frame.lm.rrpp | Extract model frame from a lm.rrpp object |
| model.matrix.lm.rrpp | Extract the model design matrix from an lm.rrpp object |
| motionpaths | Simulated motion paths |
-- N --
| na.omit.rrpp.data.frame | Handle missing values in rrpp.data.frame objects |
-- O --
| ordinate | Ordination tool for data aligned to another matrix |
-- P --
| pairwise | Pairwise comparisons of lm.rrpp fits |
| pairwise.model.Z | Pairwise comparisons of model effects |
| phytoplankton | Phytoplankton Biomass and Eutrophication |
| PlethCinHoff | Plethodon comparative SVL data |
| PlethMorph | Plethodon comparative morphological data |
| plot.interSubVar | Plot Function for RRPP |
| plot.kcomp | Plot Function for RRPP |
| plot.lm.rrpp | Plot Function for RRPP |
| plot.looCV | Plot Function for RRPP |
| plot.measurement.error | Plot Function for RRPP |
| plot.model.comparison | Plot Function for RRPP |
| plot.ordinate | Plot Function for RRPP |
| plot.predict.lm.rrpp | Plot Function for RRPP |
| plot.trajectory.analysis | Plot Function for RRPP |
| podarcis | Podarcis Wall Lizards from the Mediterranean Basin |
| powerTrans | Power Transformation |
| predict.lm.rrpp | predict for lm.rrpp model fits |
| prep.lda | Linear discriminant function for lm.rrpp model fits |
| print.anova.lm.rrpp | Print/Summary Function for RRPP |
| print.betaTest | Print/Summary Function for RRPP |
| print.coef.lm.rrpp | Print/Summary Function for RRPP |
| print.ICCstats | Print/Summary Function for RRPP |
| print.kcomp | Print/Summary Function for RRPP |
| print.lm.rrpp | Print/Summary Function for RRPP |
| print.looCV | Print/Summary Function for RRPP |
| print.lr_test | Print/Summary Function for RRPP |
| print.measurement.error | Print/Summary Function for RRPP |
| print.model.comparison | Print/Summary Function for RRPP |
| print.ordinate | Print/Summary Function for RRPP |
| print.pairwise | Print/Summary Function for RRPP |
| print.pairwise.model.Z | Print/Summary Function for RRPP |
| print.predict.lm.rrpp | Print/Summary Function for RRPP |
| print.summary.betaTest | Print/Summary Function for RRPP |
| print.summary.lm.rrpp | Print/Summary Function for RRPP |
| print.summary.manova.lm.rrpp | Print/Summary Function for RRPP |
| print.summary.ordinate | Print/Summary Function for RRPP |
| print.summary.pairwise | Print/Summary Function for RRPP |
| print.summary.trajectory.analysis | Print/Summary Function for RRPP |
| print.trajectory.analysis | Print/Summary Function for RRPP |
| Pupfish | Landmarks on pupfish |
| PupfishHeads | Landmarks on pupfish heads |
| PupfishMR | Experimental metabolic rate data from pupfish |
| pval | Obtain P-value from a vector of statistics |
-- Q --
| QRforX | QR decomposition of linear model design matrices |
-- R --
| ranef.lmm.rrpp | ranef for lmm.rrpp model fits |
| ReptAbund | Reptile Abundance Data in Western Australia |
| residuals.lm.rrpp | Extract residuals |
| reveal.model.designs | Reveal model designs used in lm.rrpp fit |
| rrpp.data.frame | Create a data frame for lm.rrpp analysis |
-- S --
| scaleCov | Scaling of a Covariance Matrix |
| snakeHS | Snake Head Size and Regional Variation |
| summary.anova.lm.rrpp | Print/Summary Function for RRPP |
| summary.betaTest | Print/Summary Function for RRPP |
| summary.coef.lm.rrpp | Print/Summary Function for RRPP |
| summary.ICCstats | Print/Summary Function for RRPP |
| summary.kcomp | Print/Summary Function for RRPP |
| summary.lm.rrpp | Print/Summary Function for RRPP |
| summary.looCV | Print/Summary Function for RRPP |
| summary.lr_test | Print/Summary Function for RRPP |
| summary.manova.lm.rrpp | Print/Summary Function for RRPP |
| summary.measurement.error | Print/Summary Function for RRPP |
| summary.model.comparison | Print/Summary Function for RRPP |
| summary.ordinate | Print/Summary Function for RRPP |
| summary.pairwise | Print/Summary Function for RRPP |
| summary.pairwise.model.Z | Print/Summary Function for RRPP |
| summary.predict.lm.rrpp | Print/Summary Function for RRPP |
| summary.trajectory.analysis | Print/Summary Function for RRPP |
-- T --
| terms.lm.rrpp | Extract the terms from an lm.rrpp object |
| trajectory.analysis | Quantify and compare shape change trajectories |
-- V --
| vec.cor.matrix | Support function for RRPP |