Miscellaneous Esoteric Statistical Scripts

[Up] [Top]

Documentation for package ‘MESS’ version 0.5.12

Help Pages

A B C D E F G H I K L M N O P Q R S T U W

MESS-package Collection of miscellaneous useful and semi-useful functions

-- A --

adaptive.weights Compute weights for use with adaptive lasso.
add_torows Fast addition of vector to each row of matrix
age Compute the age of a person from two dates.
auc Compute the area under the curve for two vectors.

-- B --

bdstat Danish live births and deaths
bees Bee data. Number of different types of bees caught.
bin Fast binning of numeric vector into equidistant bins

-- C --

categorize A table function to use with magrittr pipes
clipit Copy an object as R-code to the clipboard
clotting Blood clotting for 158 rats
cmd Correlation matrix distance
col.alpha Add and set alpha channel for RGB color
col.shade Shade an RGB color
col.tint Tint an RGB color
colCumSum Apply cumsum to each column of matrix
common.shared Compute a common shared environment matrix
common.shared.pedigree Compute a common shared environment matrix
common.shared.pedigreeList Compute a common shared environment matrix
conditional_rowMeans Form row means conditional on number of non-missing
cumsumbinning Binning based on cumulative sum with reset above threshold

-- D --

dCor Fast distance correlation matrix
dCov Fast distance covariance 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

-- E --

earthquakes Earthquakes in 2015
expand_table Expand table or matrix to data frame
extended.shared Compute a common shared environment matrix
extended.shared.pedigree Compute a common shared environment matrix
extended.shared.pedigreeList Compute a common shared environment matrix

-- F --

fac2num Convert factor to numeric vector
feature.test Inference for features identified by the Lasso
filldown Fill down NA with the last observed observation
founder.shared Compute a common shared environment matrix
founder.shared.pedigree Compute a common shared environment matrix
founder.shared.pedigreeList Compute a common shared environment matrix

-- G --

geekin Fit a generalized estimating equation (GEE) model with fixed additive correlation structure
gkgamma Goodman-Kruskal's gamma statistic for a two-dimensional table
greenland Average yearly summer air temperature for Tasiilaq, Greenland

-- H --

happiness Happiness score and tax rates for 148 countries
ht Show the head and tail of an object
hwe_frequencies Fast estimation of allele and genotype frequencies under Hardy-Weinberg equilibrium

-- I --

icecreamads Ice cream consumption and advertising

-- K --

ks_cumtest Kolmogorov-Smirnov goodness of fit test for cumulative discrete data
kwdata Non-parametric Kruskal Wallis data example

-- L --

lifeexpect Estimated life expectancy for Danish newborns
loadRData Load and extract object from RData file
lower.tri.vector Split Matrix by Clusters and Return Lower Triangular Parts as Vector

-- M --

matched Flu hospitalization
maximum_subarray Fast computation of maximum sum subarray
MESS Collection of miscellaneous useful and semi-useful functions
mfastLmCpp Fast marginal simple regresion analyses
monte_carlo_chisq_test Two-sided table test with fixed margins

-- N --

nh4 Ammonia nitrogen found in river

-- O --

ordered.clusters Check if unique elements of a vector appear in contiguous clusters

-- P --

pairwise.cor.test Pairwise Tests for Association/Correlation Between Paired Samples
pairwise_combination_indices Compute all pairwise combinations of indices
pairwise_Schur_product Compute Schur products (element-wise) of all pairwise combinations of columns in matrix
panel.hist Panel plot of histogram and density curve
panel.r2 Panel plot of R2 values for pairs
picea Ozone concentration damage to picea spruce
plr Fast computation of several simple linear regressions
plr.matrix Fast computation of several simple linear regressions
plr.numeric Fast computation of several simple linear regressions
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_prop_test Power Calculations for Two-Sample Test for Proportions with unequal sample size
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
print.geekin Fit a generalized estimating equation (GEE) model with fixed additive correlation structure

-- Q --

qdiag Fast extraction of matrix diagonal
QIC Quasi Information Criterion
QIC.geeglm Quasi Information Criterion
QIC.geekin Quasi Information Criterion
QIC.ordgee Quasi Information Criterion
qpcr Gene expression from real-time quantitative PCR
quadform Fast quadratic form computation

-- R --

rainman Perception of points in a swarm
repmat Fast replication of a matrix
residualplot Plots a standardized residual
residualplot.default Plots a standardized residual
residualplot.glm Plots a standardized residual
residualplot.lm Plots a standardized residual
residual_plot Plots a standardized residual
residual_plot.default Plots a standardized residual
residual_plot.glm Plots a standardized residual
residual_plot.lm Plots a standardized residual
rmvt.pedigree Simulate residual multivariate t-distributed data from a polygenic model
rmvtnorm.pedigree Simulate residual multivariate Gaussian data from a polygenic model
rnorm_perfect Simulate values from a perfect normal distribution
rootogram Hanging rootogram for normal distribution
rootonorm Hanging rootogram for normal distribution
round_percent Round vector of number to percentages
rud Simulate randomized urn design

-- S --

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
smokehealth Effect of smoking on self reported health
soccer Danish national soccer players
superroot2 Gene expression data from two-color dye-swap experiment

-- T --

tracemp Fast computation of trace of matrix product

-- U --

usd Unbiased standard deviation

-- W --

wallyplot Plots a Wally plot
wallyplot.default Plots a Wally plot
wallyplot.lm Plots a Wally plot
write.xml Write a data frame in XML format