Package: epitools 0.5-10.1

Adam Omidpanah

epitools: Epidemiology Tools

Tools for training and practicing epidemiologists including methods for two-way and multi-way contingency tables.

Authors:Tomas J. Aragon [aut], Michael P. Fay [ctb], Daniel Wollschlaeger [ctb], Adam Omidpanah [cre, ctb]

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epitools.pdf |epitools.html✨
epitools/json (API)

# Install 'epitools' in R:
install.packages('epitools', repos = c('https://epiverse-connect.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Datasets:
  • oswego - Outbreak of Gastrointestinal Illness in Oswego County, 1940
  • wcgs - Western Collaborative Group Study data
  • wnv - West Nile Virus human cases reported in California, USA, as of December 14, 2004

On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

6.80 score 2 stars 12 packages 742 scripts 12k downloads 105 mentions 48 exports 0 dependencies

Last updated 5 years agofrom:5516880999. Checks:OK: 3 NOTE: 4. Indexed: no.

TargetResultDate
Doc / VignettesOKNov 09 2024
R-4.5-winNOTENov 09 2024
R-4.5-linuxNOTENov 09 2024
R-4.4-winNOTENov 09 2024
R-4.4-macNOTENov 09 2024
R-4.3-winOKNov 09 2024
R-4.3-macOKNov 09 2024

Exports:ageadjust.directageadjust.indirectas.houras.monthas.weekbinom.approxbinom.exactbinom.wilsoncolorbrewer.datacolorbrewer.displaycolorbrewer.palettecolors.matrixcolors.plotepicurve.datesepicurve.hoursepicurve.monthsepicurve.tableepicurve.weeksepidateepitabepitableexpand.tableexpectedjulian2datekapmeieroddsratiooddsratio.fisheroddsratio.midpoddsratio.smalloddsratio.waldor.midpormidp.testpois.approxpois.byarpois.dalypois.exactprobratiorate2by2.testrateratiorateratio.midprateratio.waldratetableriskratioriskratio.bootriskratio.smallriskratio.waldtab2by2.testtable.margins

Dependencies:

Readme and manuals

Help Manual

Help pageTopics
Age standardization by direct method, with exact confidence intervalsageadjust.direct
Age standardization by indirect method, with exact confidence intervalsageadjust.indirect
Convert date-time object into hour unitsas.hour
Convert dates into months of the year for plotting epidemic curvesas.month
Convert dates object in 'disease week' for plotting epidemic curvesas.week
Confidence intervals for binomial counts or proportionsbinom.approx binom.exact binom.wilson
Display and create ColorBrewer palettescolorbrewer.data colorbrewer.display colorbrewer.palette
Plots R's 657 named colors for selectioncolors.matrix colors.plot
Construct an epidemic curveepicurve.dates epicurve.hours epicurve.months epicurve.table epicurve.weeks
Convert dates into multiple legible formatsepidate
Epidemiologic tabulation for a cohort or case-control studyepitab
Create r x c contigency table (exposure levels vs. binary outcome)epitable
Expand contingency table into individual-level data setexpand.table
Expected values in a tableexpected
Convert a julian date into standard a date formatjulian2date
Implements product-limit (Kaplan-Meier) methodkapmeier
Odds ratio estimation and confidence intervalsoddsratio oddsratio.fisher oddsratio.midp oddsratio.small oddsratio.wald
Odds ratio estimation and confidence intervals using mid-p methodor.midp
odds ratio test for independence (p value) for a 2x2 tableormidp.test
Outbreak of Gastrointestinal Illness in Oswego County, 1940oswego
Confidence intervals for Poisson counts or ratespois.approx pois.byar pois.daly pois.exact
Obtain unbiased probability ratios from logistic regression modelsprobratio
Comparative tests of independence in rx2 rate tablesrate2by2.test
Rate ratio estimation and confidence intervalsrateratio rateratio.midp rateratio.wald
Create r x 2 count and person-time table for calculating ratesratetable
Risk ratio estimation and confidence intervalsriskratio riskratio.boot riskratio.small riskratio.wald
Comparative tests of independence in rx2 contigency tablestab2by2.test
Marginal totals of a tabletable.margins
Western Collaborative Group Study datawcgs
West Nile Virus human cases reported in California, USA, as of December 14, 2004wnv