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RVAideMemoire (version 0.9-78)

Testing and Plotting Procedures for Biostatistics

Description

Contains miscellaneous functions useful in biostatistics, mostly univariate and multivariate testing procedures with a special emphasis on permutation tests. Many functions intend to simplify user's life by shortening existing procedures or by implementing plotting functions that can be used with as many methods from different packages as possible.

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Version

Install

install.packages('RVAideMemoire')

Monthly Downloads

4,081

Version

0.9-78

License

GPL-2

Maintainer

Maxime Herve9

Last Published

September 4th, 2020

Functions in RVAideMemoire (0.9-78)

Cross validation

Cross validation

G.theo.multcomp

Pairwise comparisons after a G-test for given probabilities

Significance test for CDA

Pairwise comparisons after a G-test

Significance test for GPA

Significance test based on cross-validation

Anova Tables for Cumulative Link (Mixed) Models

G-test for binary variables

Loadings of multivariate analyses

Cross model validation

Loading plot of multivariate analyses

Paired plot of multivariate analyses

Plotting of multivariate analyses

Correlations of multivariate analyses

Cross validation

Correlation circle of multivariate analyses

Variable Importance in the Projection (VIP)

Type II permutation MANOVA using distance matrices

Back-transformation of EMMeans

QQ-plot for factor levels

Shapiro-Wilk test for factor levels

Trajectory plot of multivariate analyses

Odds-ratio (multinomial regression)

RVAideMemoire-package

Testing and Plotting Procedures for Biostatistics

Expected counts for comparison of proportions to given values

Pearson's Chi-squared test for binary variables

Synthesis quality of multivariate analyses

Significance test based on cross (model) validation

Dummy responses

Condition number of the Hessian matrix of a multinomial log-linear model

Type II permutation test for constrained multivariate analyses

Empirical logistic transformation

Mood's median test

Biplot of multivariate analyses

Significance test for the covariance between two datasets

Dendrogram and number of groups to be chosen

Comparison of several Pearson's linear correlation coefficients

Graphical adujstment of a simple binary logistic regression to data

Deprecated functions in RVAideMemoire package

QQ-plot for factor levels

Martingale residuals of a Cox model

pairwise.CDA.test

Pairwise comparisons for CDA

Cramer's association coefficient

Coordinates of projected points

pairwise.G.test

Pairwise comparisons for proportions using G-tests

Scores of multivariate analyses

Score plot of multivariate analyses

multinomial.multcomp

Pairwise comparisons after an exact multinomial test

multinomial.test

Exact multinomial test

Shapiro-Wilk test for factor levels

Cumulative Distribution Function of a known discrete distribution

Pairwise comparisons after a chi-squared goodness-of-fit test

Expected counts for comparison of response probabilities to given values

Comparison of 2 Pearson's linear correlation coefficients

Histogram for factor levels

chisq.theo.bintest

Pearson's Chi-squared test for comparison of response probabilities to given values

Equality of a Pearson's linear correlation coefficient to a given value

Cramer's association coefficient

pairwise.var.test

Pairwise F tests

Fisher's exact test for binary variables

chisq.theo.multcomp

Pairwise comparisons after a chi-squared test for given probabilities

Cochran's Q test

Individual contributions in regression

Coefficient of variation

Fligner-Policello test

Creating a nls model for logistic regression from fitted values of a glm model

fisher.multcomp

Pairwise comparisons using Fisher's exact test

multinomial.theo.multcomp

Pairwise comparisons after an exact multinomial test for given probabilities

pairwise.mood.medtest

Pairwise Mood's median tests

Re-computation of an ordination using given row weights

Tests for (semi-)partial association/correlation between paired samples

Estimation of overdispersion with glmer models

Multivariate normality QQ-Plot

Permutation Student's t-test

prop.multinom.test

Wald tests for comparison of proportions

wilcox.paired.multcomp

Non parametric pairwise comparisons for paired data

EMMeans for Cumulative Link (Mixed) Models

Permutation F test to compare two variances

wilcox.signtest

Wilcoxon sign test

Permutation Analysis of Variance

pairwise.perm.manova

Pairwise permutation MANOVAs

Least rectangles linear regression

Univariate correlation test for multiple variables

(Semi-)Partial correlation

perm.bartlett.test

Permutation Bartlett's test of homogeneity of variances

Permutation Pearson's correlation test

Confidence intervals of a simple linear regression

Observed rating frequencies

Proportions and standard errors

Standardization of a data frame based on another data frame

Pairwise comparisons after a test for given proportions

Significance tests of coefficients (multinomial regression)

Shapiro-Wilk multivariate normality test

Slope of a hand-defined line

Simple analysis of model residuals

pairwise.perm.t.test

Pairwise permutation t tests

wald.ptheo.multinom.test

Wald tests for comparison of proportions to theoretical values

wald.ptheo.test

Wald test for comparison of a proportion to a theoretical value

Confidence interval of a Spearman's rank correlation coefficient

spearman.cor.multcomp

Comparison of several Spearman's rank correlation coefficients

Divide into groups respecting relative proportions

Sequence generation

pairwise.perm.var.test

Pairwise permutation F tests

prop.bin.multcomp

Pairwise comparisons after a test for given probabilities

predict.coadisc

Predict method for CDA

Synthesis quality of multivariate analyses

Univariate comparison of groups for multiple variables

multtest.gp.bin

Univariate comparison of groups for multiple binary variables

User defined contrasts for EMMeans

Predict method for cross-validated CDA submodels

pairwise.MVA.test

Pairwise permutation tests based on cross (model) validation

pairwise.factorfit

Pairwise comparisons of groups displayed on a factorial map

"Correlation" of variables to axes in MCA or mix analyses

Weighted arithmetic mean

Predict method for cross-validated submodels