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pubh

A toolbox for Public Health and Epidemiology

"pubh" is an R pacakage for making R functions and capabilities more accessible to students and professionals from epidemiology and public health related disciplines.

Information on use with examples can be found in "vignettes".

To install, type in R console:

devtools::install_github("josie-athens/pubh", build_vignettes = TRUE)

Package "devtools" is required to install "pubh" from the GitHub repositories.

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Version

Install

install.packages('pubh')

Monthly Downloads

438

Version

1.1.16

License

GPL-2

Issues

5

Pull Requests

1

Stars

5

Forks

4

Maintainer

Josie Athens

Last Published

July 7th, 2020

Functions in pubh (1.1.16)

Roberts

Extracorporeal membrane oxygenation in neonates.
chisq.fisher

Internal test for chi-squared assumption.Fisher (2 by 2). If results = T, it fails
cross_tab

Cross-tabulation.
contingency

Measures of association from two by two contingency tables (formula).
contingency2

Measures of association from two by two contingency tables (direct input).
coef_det

Coefficient of determination.
bst

Bootstrap Confidence Intervals.
estat

Descriptive statistics for continuous variables.
Sharples

Measured and self-reported weight in New Zealand.
expand_df

Expand a data frame.
Thall

RCT on the treatment of epilepsy.
hist_norm

Histogram with Normal density curve.
axis_labs

Apply labels from variables to axis-labels in plots.
bar_error

Bar charts with error bars.
jack_knife

Ranks leverage observations from Jackknife method.
gen_bst_df

Generate a data frame with estimate and bootstrap CIs.
freq_cont

Relative and Cumulative Frequency.
leverage

Leverage.
knife_mean

Jackknife for means.
bland_altman

Bland-Altman agreement plots.
Tuzson

Peak knee velocity in walking at flexion and extension.
inv_logit

Inverse of the logit
predict_inv

Given y solve for x in a simple linear model.
Vanderpump

Smoking and mortality in Whickham, England.
box_plot

Construct box plots.
gf_star

Annotating a plot to display differences between groups.
diag_test

Diagnostic tests from variables.
geo_mean

Geometric mean.
diag_test2

Diagnostic tests from direct input.
prop_or

Proportion, p1 from proportion p2 and OR.
rank_influence

Ranks observations based upon influence measures on models.
rank_leverage

Ranks observations by leverage.
multiple

Multiple comparisons with plot.
glm_coef

Table of coefficients from generalised linear models.
odds_trend

Function to calculate OR using Wald CI, and plot trend.
ss_jk

Sum of squares for Jackknife.
round_pval

Rounding p-values.
harm_mean

Harmonic mean.
mhor

Mantel-Haenszel odds ratio.
model_labels

Using labels as coefficient names in tables of coefficients.
logistic_gof

Goodness of fit for Logistic Regression.
reference_range

Reference range (reference interval).
rel_dis

Relative Dispersion.
pseudo_r2

Pseudo R2 (logistic regression) pseudo_r2 Calculates R2 analogues (pseudo R2) of logistic regression.
stats_quotes

Internal function to calculate descriptive statistics.
strip_error

Strip plots with error bars.
qq_plot

Quantile-quantile plots against the standard Normal distribution.
Macmahon

Breast cancer and age of childbirth.
Sandler

Passive smoking in adulthood and cancer risk.
Hodgkin

T-cell counts from Hodgkin's disease patients.
Brenner

Prevalence of Helicobacter pylori infection in preschool children.
Rothman

Oral contraceptives and stroke.
Bernard

Survival of patients with sepsis.
Fentress

Migraine pain reduction.
Kirkwood

Body weight and plasma volume.
Oncho

Onchocerciasis in Sierra Leone.