A Toolbox for Public Health and Epidemiology


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Documentation for package ‘pubh’ version 0.2.2

Help Pages

bar_error Bar charts with error bars.
Bernard Survival of patients with sepsis.
bland_altman Bland-Altman agreement plots.
box_plot Construct "pretty" box plots in lattice.
Brenner Prevalence of Helicobacter pylori infection in preschool children.
bst Bootstrap Confidence Intervals.
chisq.fisher Internal test for chi-squared assumption.Fisher (2 by 2). If results = T, it fails
coef_det Coefficient of determination.
coef_plot Plot of model coefficients.
contingency Measures of association from two by two contingency tables (formula).
contingency2 Measures of association from two by two contingency tables (direct input).
diag_test Diagnostic tests from variables.
diag_test2 Diagnostic tests from direct input.
estat Descriptive statistics for continuous variables.
expand_df Expand a data frame.
Fentress Migraine pain reduction.
freq_cont Relative and Cumulative Frequency.
gen_bst_df Generate a data frame with estimate and bootstrap CIs.
geo_mean Geometric mean.
glm_coef Table of coefficients from generalised linear models.
harm_mean Harmonic mean.
hist_norm Histogram with Normal density curve.
Hodgkin T-cell counts from Hodgkin's disease patients.
inv_logit Inverse of the logit
jack_knife Ranks leverage observations from Jackknife method.
Kirkwood Body weight and plasma volume.
knife_mean Jackknife for means.
leverage Leverage.
logistic_gof Goodness of fit for Logistic Regression.
Macmahon Breast cancer and age of childbirth.
mhor Mantel-Haenszel odds ratio.
odds_trend Function to calculate OR using Wald CI, and plot trend.
Oncho Onchocerciasis in Sierra Leone.
panel.errbars Internal function for displaying error bars in lattice plots.
panel.errbars1 Internal function for displaying error bars in lattice plots.
predict_inv Given y solve for x in a simple linear model.
prop_or Proportion, p1 from proportion p2 and OR.
qq_plot Quantile-quantile plots against the standard Normal distribution.
rank_influence Ranks observations based upon influence measures on models.
rank_leverage Ranks observations by leverage.
reference_range Reference range (reference interval).
rel_dis Relative Dispersion.
Roberts Extracorporeal membrane oxygenation in neonates.
Rothman Oral contraceptives and stroke.
round_pval Rounding p-values.
rvf_plot Residual vs Fitted plot.
Sandler Passive smoking in adulthood and cancer risk.
Sharples Measured and self-reported weight in New Zealand.
ss_jk Sum of squares for Jackknife.
stats_quotes Internal function to calculate descriptive statistics.
strip_error Strip plots with error bars.
Thall RCT on the treatment of epilepsy.
Tuzson Peak knee velocity in walking at flexion and extension.
Vanderpump Smoking and mortality in Whickham, England.
xymultiple Multiple comparisons with plot.