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RVAideMemoire (version 0.9-75)

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

0.9-75

License

GPL-2

Maintainer

Maxime Herve9

Last Published

March 4th, 2020

Functions in RVAideMemoire (0.9-75)

Cross validation

Cross validation

Pairwise comparisons after a G-test

Anova Tables for Cumulative Link (Mixed) Models

G.theo.multcomp

Pairwise comparisons after a G-test for given probabilities

Significance test based on cross-validation

Significance test for GPA

Significance test for CDA

G-test for binary variables

Loadings of multivariate analyses

RVAideMemoire-package

Testing and Plotting Procedures for Biostatistics

Correlations of multivariate analyses

Variable Importance in the Projection (VIP)

Cross model validation

QQ-plot for factor levels

Shapiro-Wilk test for factor levels

Trajectory plot of multivariate analyses

Correlation circle of multivariate analyses

Cross validation

Plotting of multivariate analyses

Odds-ratio (multinomial regression)

Scores of multivariate analyses

Paired plot of multivariate analyses

Score plot of multivariate analyses

Loading plot of multivariate analyses

Cumulative Distribution Function of a known discrete distribution

Cramer's association coefficient

Expected counts for comparison of response probabilities to given values

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

Coefficient of variation

Comparison of 2 Pearson's linear correlation coefficients

Significance test based on cross (model) validation

Synthesis quality of multivariate analyses

Pearson's Chi-squared test for binary variables

Histogram for factor levels

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

Type II permutation test for constrained multivariate analyses

Coordinates of projected points

Fligner-Policello test

fisher.multcomp

Pairwise comparisons using Fisher's exact test

Expected counts for comparison of proportions to given values

Comparison of several Pearson's linear correlation coefficients

Individual contributions in regression

Least rectangles linear regression

Dummy responses

Shapiro-Wilk multivariate normality test

Type II permutation MANOVA using distance matrices

QQ-plot for factor levels

Biplot of multivariate analyses

Cochran's Q test

Re-computation of an ordination using given row weights

chisq.theo.multcomp

Pairwise comparisons after a chi-squared test for given probabilities

Fisher's exact test for binary variables

Significance test for the covariance between two datasets

multtest.gp.bin

Univariate comparison of groups for multiple binary variables

Slope of a hand-defined line

Graphical adujstment of a simple binary logistic regression to data

Shapiro-Wilk test for factor levels

Dendrogram and number of groups to be chosen

multinomial.multcomp

Pairwise comparisons after an exact multinomial test

pairwise.MVA.test

Pairwise permutation tests based on cross (model) validation

Estimation of overdispersion with glmer models

Back-transformation of EMMeans

Deprecated functions in RVAideMemoire package

pairwise.CDA.test

Pairwise comparisons for CDA

pairwise.perm.var.test

Pairwise permutation F tests

pairwise.var.test

Pairwise F tests

pairwise.G.test

Pairwise comparisons for proportions using G-tests

chisq.theo.bintest

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

(Semi-)Partial correlation

Martingale residuals of a Cox model

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

Cramer's association coefficient

Mood's median test

Pairwise comparisons after a test for given proportions

Multivariate normality QQ-Plot

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

Confidence interval of a Spearman's rank correlation coefficient

pairwise.perm.manova

Pairwise permutation MANOVAs

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

prop.bin.multcomp

Pairwise comparisons after a test for given probabilities

Predict method for cross-validated CDA submodels

multinomial.test

Exact multinomial test

Univariate correlation test for multiple variables

Univariate comparison of groups for multiple variables

Permutation Analysis of Variance

Predict method for cross-validated submodels

perm.bartlett.test

Permutation Bartlett's test of homogeneity of variances

predict.coadisc

Predict method for CDA

spearman.cor.multcomp

Comparison of several Spearman's rank correlation coefficients

User defined contrasts for EMMeans

pairwise.perm.t.test

Pairwise permutation t tests

Permutation F test to compare two variances

Confidence intervals of a simple linear regression

Simple analysis of model residuals

multinomial.theo.multcomp

Pairwise comparisons after an exact multinomial test for given probabilities

wald.ptheo.multinom.test

Wald tests for comparison of proportions to theoretical values

Sequence generation

Divide into groups respecting relative proportions

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

Observed rating frequencies

Weighted arithmetic mean

wilcox.signtest

Wilcoxon sign test

EMMeans for Cumulative Link (Mixed) Models

Synthesis quality of multivariate analyses

Standardization of a data frame based on another data frame

Significance tests of coefficients (multinomial regression)

pairwise.factorfit

Pairwise comparisons of groups displayed on a factorial map

Permutation Pearson's correlation test

Proportions and standard errors

wald.ptheo.test

Wald test for comparison of a proportion to a theoretical value

pairwise.mood.medtest

Pairwise Mood's median tests

wilcox.paired.multcomp

Non parametric pairwise comparisons for paired data

prop.multinom.test

Wald tests for comparison of proportions

Permutation Student's t-test