Linear Model Evaluation with Randomized Residuals in a
Permutation Procedure
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Documentation for package ‘RRPP’ version 2.0.4
Help Pages
| 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 |
| classify | Deprecated functions in RRPP |
| coef.lm.rrpp | coef for lm.rrpp model fits |
| convert2ggplot | Convert RRPP plots to ggplot objects |
| effect.size | Obtain Effect-size from a vector of values |
| fishy | Simulated fish data for measurement error analysis |
| fitted.lm.rrpp | Extract fitted values |
| focusMEonSubjects | Plot Function for RRPP |
| 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 |
| ICCstats | Intraclass correlation statistics from an lm.rrpp model fits |
| interSubVar | Reveal the inter-subject variability from a measurement error analysis |
| lm.rrpp | Linear Model Evaluation with a Randomized Residual Permutation Procedure |
| lm.rrpp.ws | 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 for ordination based on fitted values |
| lr_test | Likelihood ratio test for a linear model, based on RRPP |
| mahal_dist | Calculate the pairwise Mahalanobis distances between observations |
| 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 |
| na.omit.rrpp.data.frame | Handle missing values in rrpp.data.frame objects |
| ordinate | Ordination tool for data aligned to another matrix |
| pairwise | Pairwise comparisons of lm.rrpp fits |
| PlethMorph | Plethodon comparative morphological data |
| plot.interSubVar | 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 |
| 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.coef.lm.rrpp | Print/Summary Function for RRPP |
| print.ICCstats | 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.predict.lm.rrpp | 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 |
| pval | Obtain P-value from a vector of values |
| QRforX | QR decomposition of linear model design matrices |
| 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 |
| scaleCov | Scaling of a Covariance Matrix |
| summary.anova.lm.rrpp | Print/Summary Function for RRPP |
| summary.coef.lm.rrpp | Print/Summary Function for RRPP |
| summary.ICCstats | 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.predict.lm.rrpp | Print/Summary Function for RRPP |
| summary.trajectory.analysis | Print/Summary Function for RRPP |
| terms.lm.rrpp | Extract the terms from an lm.rrpp object |
| trajectory.analysis | Quantify and compare shape change trajectories |
| vec.cor.matrix | Support function for RRPP |