The MESS package contains a mix of functions.

There is no real connection between the function except they have all been created by the same person, and they range from computational functions, graphical functions, statistical analysis functions, utility functions, and function that extend other packages.

This vignette gives an overview of the package and shows some examples.

Overview

Statistical analysis

QIC.geeglm	Quasi Information Criterion
adaptive.weights	Compute weights for use with adaptive lasso.
common.shared	Compute a common shared environment matrix
drop1.geeglm	Drop All Possible Single Terms to a geeglm Model Using Wald or Score Test
drop1.geem	Drop All Possible Single Terms to a geem Model Using Wald or Score Test
extended.shared	Compute a common shared environment matrix
feature.test	Inference for features identified by the Lasso
geekin	Fit a generalized estimating equation (GEE) model with fixed additive correlation structure
gkgamma	Goodman-Kruskal’s gamma statistic for a two-dimensional table
mfastLmCpp	Fast marginal simple regresion analyses
onemargintest	Two-sided table test with fixed margins
power_binom_test	Power Calculations for Exact Test of a simple null hypothesis in a Bernoulli experiment
power_mcnemar_test	Power Calculations for Exact and Asymptotic McNemar Test in a 2 by 2 table
power_t_test	Power calculations for one and two sample t tests with unequal sample size
prepost.test	Pretest-posttest RCT for quantitative observations with possible missing values

Utility functions

age	Compute the age of a person from two dates.
auc	Compute the area under the curve for two vectors.
categorize	A table function to use with magrittr pipes
cmd	Correlation matrix distance
expand_table	Expand table or matrix to data frame
fac2num	Convert factor to numeric vector
filldown	Fill down NA with the last observed observation
ht	Show the head and tail of an object
lower.tri.vector	Split Matrix by Clusters and Return Lower Triangular Parts as Vector
ordered.clusters	Check if unique elements of a vector appear in contiguous clusters
qdiag	Fast extraction of matrix diagonal
qpcr	Gene expression from real-time quantitative PCR
quadform	Fast quadratic form computation
repmat	Fast replication of a matrix
rmvt.pedigree	Simulate residual multivariate t-distributed data from a polygenic model
rmvtnorm.pedigree	Simulate residual multivariate Gaussian data from a polygenic model
round_percent	Round vector of number to percentages
scorefct	Internal functions for the MESS package
screen_variables	Screen variable before penalized regression
segregate.genes	Segregate genes through a pedigree
sinv	Invert a symmetric positive-definite matrix
tracemp	Fast computation of trace of matrix product
write.xml	Write a data frame in XML format

Graphics

col.alpha	Add and set alpha channel for RGB color
col.shade	Shade an RGB color
col.tint	Tint an RGB color
panel.hist	Panel plot of histogram and density curve
panel.r2	Panel plot of R2 values for pairs
residualplot.default	Plots a standardaized residual
rootonorm	Hanging rootogram for normal distribution
wallyplot.default	Plots a Wally plot

Datasets

bdstat	Danish live births and deaths
bees	Bee data. Number of different types of bees caught.
clotting	Blood clotting for 158 rats
earthquakes	Earthquakes in 2015
greenland	Average yearly summer air temperature for Tasiilaq, Greenland
happiness	Happiness score and tax rates for 148 countries
icecreamads	Ice cream consumption and advertising
kwdata	Non-parametric Kruskal Wallis data example
lifeexpect	Estimated life expectancy for Danish newborns
matched	Flu hospitalization
nh4	Ammonia nitrogen found in river
picea	Ozone concentration damage to picea spruce
qpcr	Gene expression from real-time quantitative PCR
rainman	Perception of points in a swarm
smokehealth	Effect of smoking on self reported health
soccer	Danish national soccer players
superroot2	Gene expression data from two-color dye-swap experiment