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RVAideMemoire (version 0.9-83-2)

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

4,870

Version

0.9-83-2

License

GPL-2

Maintainer

Maxime Herve9

Last Published

August 23rd, 2023

Functions in RVAideMemoire (0.9-83-2)

Cross model validation

Type II permutation test for constrained multivariate analyses

Correlations of multivariate analyses

Cross validation

Biplot of multivariate analyses

Correlation circle of multivariate analyses

Paired plot of multivariate analyses

Plotting of multivariate analyses

Loadings of multivariate analyses

Loading plot of multivariate analyses

Variable Importance in the Projection (VIP)

Back-transformation of EMMeans

Significance test based on cross (model) validation

Synthesis quality of multivariate analyses

Scores of multivariate analyses

RVAideMemoire-package

Testing and Plotting Procedures for Biostatistics

Type II permutation MANOVA using distance matrices

Score plot of multivariate analyses

Odds-ratio (multinomial regression)

Expected counts for comparison of response probabilities to given values

Trajectory plot of multivariate analyses

QQ-plot for factor levels

Cumulative Distribution Function of a known discrete distribution

Pearson's Chi-squared test for binary variables

Histogram for factor levels

chisq.theo.bintest

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

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

Coordinates of projected points

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

Shapiro-Wilk test for factor levels

Comparison of 2 Pearson's linear correlation coefficients

QQ-plot for factor levels

Comparison of several Pearson's linear correlation coefficients

Expected counts for comparison of proportions to given values

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

Dendrogram and number of groups to be chosen

Significance test for the covariance between two datasets

Martingale residuals of a Cox model

Fisher's exact test for binary variables

Shapiro-Wilk multivariate normality test

fisher.multcomp

Pairwise comparisons using Fisher's exact test

Deprecated functions in RVAideMemoire package

Multivariate normality QQ-Plot

Cramer's association coefficient

Fligner-Policello test

Coefficient of variation

Shapiro-Wilk test for factor levels

Cramer's association coefficient

Re-computation of an ordination using given row weights

Estimation of overdispersion with glmer 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

Least rectangles linear regression

Slope of a hand-defined line

Univariate correlation test for multiple variables

multinomial.theo.multcomp

Pairwise comparisons after an exact multinomial test for given probabilities

Individual contributions in regression

Univariate comparison of groups for multiple variables

multtest.gp.bin

Univariate comparison of groups for multiple binary variables

Dummy responses

chisq.theo.multcomp

Pairwise comparisons after a chi-squared test for given probabilities

Cochran's Q test

(Semi-)Partial correlation

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

pairwise.G.test

Pairwise comparisons for proportions using G-tests

pairwise.factorfit

Pairwise comparisons of groups displayed on a factorial map

perm.bartlett.test

Permutation Bartlett's test of homogeneity of variances

Predict method for cross-validated CDA submodels

Permutation Analysis of Variance

pairwise.MVA.test

Pairwise permutation tests based on cross (model) validation

multinomial.test

Exact multinomial test

pairwise.var.test

Pairwise F tests

multinomial.multcomp

Pairwise comparisons after an exact multinomial test

pairwise.perm.var.test

Pairwise permutation F tests

Predict method for cross-validated submodels

predict.coadisc

Predict method for CDA

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

pairwise.perm.t.test

Pairwise permutation t tests

Observed rating frequencies

pairwise.perm.manova

Pairwise permutation MANOVAs

Empirical logistic transformation

Proportions and standard errors

Confidence intervals of a simple linear regression

Synthesis quality of multivariate analyses

spearman.cor.multcomp

Comparison of several Spearman's rank correlation coefficients

Divide into groups respecting relative proportions

pairwise.mood.medtest

Pairwise Mood's median tests

Pairwise comparisons after a test for given proportions

prop.bin.multcomp

Pairwise comparisons after a test for given probabilities

Permutation F test to compare two variances

Standardization of a data frame based on another data frame

Significance tests of coefficients (multinomial regression)

Simple analysis of model residuals

Sequence generation

Confidence interval of a Spearman's rank correlation coefficient

Mood's median test

wald.ptheo.test

Wald test for comparison of a proportion to a theoretical value

wald.ptheo.multinom.test

Wald tests for comparison of proportions to theoretical values

prop.multinom.test

Wald tests for comparison of proportions

pairwise.CDA.test

Pairwise comparisons for CDA

Rescaling of a [0,1] variable into the (0,1) interval (and vice-versa)

Permutation Pearson's correlation test

Permutation Student's t-test

User defined contrasts for EMMeans

wilcox.paired.multcomp

Non parametric pairwise comparisons for paired data

quasibinomial.QAIC

QAIC(c) calculation with GLMs of the quasi- family

EMMeans for Cumulative Link (Mixed) Models

Weighted arithmetic mean

wilcox.signtest

Wilcoxon sign test

Pairwise comparisons after a G-test

G.theo.multcomp

Pairwise comparisons after a G-test for given probabilities

Significance test for GPA

G-test for binary variables

Significance test based on cross-validation

Anova Tables for Cumulative Link (Mixed) Models

Cross validation

Cross validation

Significance test for CDA