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RVAideMemoire (version 0.9-79)

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

4,000

Version

0.9-79

License

GPL-2

Maintainer

Maxime Herve9

Last Published

January 27th, 2021

Functions in RVAideMemoire (0.9-79)

Anova Tables for Cumulative Link (Mixed) Models

G.theo.multcomp

Pairwise comparisons after a G-test for given probabilities

Pairwise comparisons after a G-test

Significance test for CDA

Significance test based on cross-validation

Cross validation

Cross validation

Significance test for GPA

G-test for binary variables

Correlation circle of multivariate analyses

Correlations of multivariate analyses

Cross model validation

Loadings of multivariate analyses

Cross validation

Biplot of multivariate analyses

Type II permutation test for constrained multivariate analyses

Loading plot of multivariate analyses

Paired plot of multivariate analyses

Type II permutation MANOVA using distance matrices

Synthesis quality of multivariate analyses

Plotting of multivariate analyses

Trajectory plot of multivariate analyses

Scores of multivariate analyses

Score plot of multivariate analyses

QQ-plot for factor levels

Significance test based on cross (model) validation

Shapiro-Wilk test for factor levels

Odds-ratio (multinomial regression)

Variable Importance in the Projection (VIP)

Expected counts for comparison of proportions to given values

Pearson's Chi-squared test for binary variables

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

Coordinates of projected points

Cramer's association coefficient

Martingale residuals of a Cox model

Cramer's association coefficient

Coefficient of variation

Fligner-Policello test

Individual contributions in regression

Shapiro-Wilk test for factor levels

QQ-plot for factor levels

Back-transformation of EMMeans

Re-computation of an ordination using given row weights

Mood's median test

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

Cochran's Q test

chisq.theo.multcomp

Pairwise comparisons after a chi-squared test for given probabilities

RVAideMemoire-package

Testing and Plotting Procedures for Biostatistics

Cumulative Distribution Function of a known discrete distribution

Comparison of 2 Pearson's linear correlation coefficients

Expected counts for comparison of response probabilities to given values

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

chisq.theo.bintest

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

multinomial.multcomp

Pairwise comparisons after an exact multinomial test

multinomial.test

Exact multinomial test

pairwise.MVA.test

Pairwise permutation tests based on cross (model) validation

Histogram for factor levels

Dummy responses

Deprecated functions in RVAideMemoire package

Empirical logistic transformation

multinomial.theo.multcomp

Pairwise comparisons after an exact multinomial test for given probabilities

Dendrogram and number of groups to be chosen

Least rectangles linear regression

Estimation of overdispersion with glmer models

pairwise.mood.medtest

Pairwise Mood's median tests

Univariate correlation test for multiple variables

pairwise.perm.manova

Pairwise permutation MANOVAs

pairwise.factorfit

Pairwise comparisons of groups displayed on a factorial map

Permutation Student's t-test

Permutation F test to compare two variances

Comparison of several Pearson's linear correlation coefficients

(Semi-)Partial correlation

pairwise.var.test

Pairwise F tests

Slope of a hand-defined line

spearman.cor.multcomp

Comparison of several Spearman's rank correlation coefficients

Divide into groups respecting relative proportions

predict.coadisc

Predict method for CDA

Univariate comparison of groups for multiple variables

prop.multinom.test

Wald tests for comparison of proportions

EMMeans for Cumulative Link (Mixed) Models

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

Graphical adujstment of a simple binary logistic regression to data

Significance test for the covariance between two datasets

pairwise.CDA.test

Pairwise comparisons for CDA

Confidence intervals of a simple linear regression

prop.bin.multcomp

Pairwise comparisons after a test for given probabilities

Observed rating frequencies

multtest.gp.bin

Univariate comparison of groups for multiple binary variables

pairwise.perm.t.test

Pairwise permutation t tests

Fisher's exact test for binary variables

pairwise.G.test

Pairwise comparisons for proportions using G-tests

fisher.multcomp

Pairwise comparisons using Fisher's exact test

Multivariate normality QQ-Plot

perm.bartlett.test

Permutation Bartlett's test of homogeneity of variances

Permutation Pearson's correlation test

Sequence generation

Confidence interval of a Spearman's rank correlation coefficient

pairwise.perm.var.test

Pairwise permutation F tests

Significance tests of coefficients (multinomial regression)

Standardization of a data frame based on another data frame

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

Permutation Analysis of Variance

Simple analysis of model residuals

Weighted arithmetic mean

User defined contrasts for EMMeans

Synthesis quality of multivariate analyses

Shapiro-Wilk multivariate normality test

Predict method for cross-validated submodels

Proportions and standard errors

Pairwise comparisons after a test for given proportions

Predict method for cross-validated CDA submodels

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

wald.ptheo.multinom.test

Wald tests for comparison of proportions to theoretical values

wilcox.paired.multcomp

Non parametric pairwise comparisons for paired data

wald.ptheo.test

Wald test for comparison of a proportion to a theoretical value

wilcox.signtest

Wilcoxon sign test