A package for statistical analysis in epidemiology.


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Documentation for package ‘Epi’ version 1.1.24

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

-- A --

apc.fit Fit an Age-Period-Cohort model to tabular data.
apc.frame Produce an empty frame for display of parameter-estimates from Age-Period-Cohort-models.
apc.lines Plot APC-estimates (and other things) in an APC-frame.
apc.plot Plot the estimates from a fitted Age-Period-Cohort model
Aplot Functions to plot rates from a table classified by age and calendar time (period)
as.Date.cal.yr Functions to convert character, factor and various date objects into a number, and vice versa.

-- B --

bdendo A case-control study of endometrial cancer
bdendo11 A 1:1 subset of the endometrial cancer case-control study
births Births in a London Hospital
blcaIT Bladder cancer mortality in Italian males
boxarr Draw boxes and arrows for illustration of multistate models.
boxes Draw boxes and arrows for illustration of multistate models.
boxes.Lexis Draw boxes and arrows for illustration of multistate models.
breaks Extract time band data from a split Lexis object
brv Bereavement in an elderly cohort

-- C --

cal.yr Functions to convert character, factor and various date objects into a number, and vice versa.
ccwc Generate a nested case-control study
ci.cum Compute cumulative sum of estimates.
ci.lin Compute linear functions of parameters with s.e.
ci.mat Compute linear functions of parameters with s.e.
ci.pd Compute confidence limits for a difference of two independent proportions.
clear Functions to manage and explore the workspace
clogistic Conditional logistic regression
contr.2nd Contrast matrices
contr.cum Contrast matrices
contr.diff Contrast matrices
contr.orth Contrast matrices
count Special functions for use in stat.table
countLexis Cut follow-up at a specified date for each person.
Cplot Functions to plot rates from a table classified by age and calendar time (period)
cutLexis Cut follow-up at a specified date for each person.

-- D --

dbox Draw boxes and arrows for illustration of multistate models.
detrend Projection of a model matrix on to the orthogonal complement of a trend.
diet Diet and heart data
DMconv Conversion to diabetes
DMlate The Danish National Diabetes Register.
DMrand The Danish National Diabetes Register.
dur Time series methods for Lexis objects

-- E --

effx Function to calculate effects
effx.match Function to calculate effects for individually matched case-control studies
entry Time series methods for Lexis objects
ewrates Rates of lung and nasal cancer mortality, and total mortality.
exit Time series methods for Lexis objects
expand.data Function to expand data for regression analysis of interval censored data.

-- F --

factorize Transform a Lexis objects
factorize.Lexis Transform a Lexis objects
fillarr Draw boxes and arrows for illustration of multistate models.
fit.add Fit an addive excess risk model to interval censored data.
fit.baseline Fit a piecewise contsnt intesity model for interval censored data.
fit.mult Fits a multiplicative relative risk model to interval censored data.
float Calculate floated variances
ftrend Fit a floating trend to a factor in generalized linear model

-- G --

gmortDK Population mortality rates for Denmark in 5-years age groups.

-- H --

hivDK hivDK: seroconversion in a cohort of Danish men

-- I --

Icens Fits a regression model to interval censored data.

-- L --

lep An unmatched case-control study of leprosy incidence
Lexis Create a Lexis object
Lexis.diagram Plot a Lexis diagram
Lexis.lines Draw life lines in a Lexis diagram.
Life.lines Compute dates/ages for life lines in a Lexis diagram
lines.Lexis Lexis diagrams
linesEst Plot estimates with confidence limits
lls Functions to manage and explore the workspace
lungDK Male lung cancer incidence in Denmark

-- M --

merge.data.frame Merge data frame with a Lexis object
merge.Lexis Merge a Lexis object with a data frame
mh Mantel-Haenszel analyses of cohort and case-control studies
mortDK Population mortality rates for Denmark in 1-year age-classes.
msdata Create a dataframe suitable for use with the mstate package.
msdata.Lexis Create a dataframe suitable for use with the mstate package.

-- N --

ncut Function to group a variable in intervals.
nice Nice breakpoints
nickel A Cohort of Nickel Smelters in South Wales

-- O --

occup A small occupational cohort

-- P --

pc.lines Plot APC-estimates (and other things) in an APC-frame.
pc.matlines Plot APC-estimates (and other things) in an APC-frame.
pc.matpoints Plot APC-estimates (and other things) in an APC-frame.
pc.points Plot APC-estimates (and other things) in an APC-frame.
pctab Create percentages in a table
percent Special functions for use in stat.table
plot.Lexis Lexis diagrams
plotEst Plot estimates with confidence limits
plotevent Plot Equivalence Classes
points.Lexis Lexis diagrams
pointsEst Plot estimates with confidence limits
Pplot Functions to plot rates from a table classified by age and calendar time (period)
print.floated Calculate floated variances
print.Icens Fits a regression model to interval censored data.
print.stat.table Tables of summary statistics
print.summary.Lexis Summarize transitions and risk time from a Lexis object
projection.ip Projection of columns of a matrix.
PY.ann Lexis diagrams
PY.ann.Lexis Lexis diagrams

-- R --

rateplot Functions to plot rates from a table classified by age and calendar time (period)
ratio Special functions for use in stat.table
Relevel Reorder and combine levels of a factor
ROC Function to compute and draw ROC-curves.

-- S --

S.typh Salmonella Typhimurium outbreak 1996 in Denmark.
splitLexis Split follow-up time in a Lexis object
stack.Lexis Functions to facilitate analysis of multistate models.
stat.table Tables of summary statistics
status Time series methods for Lexis objects
subset.Lexis Subsetting Lexis objects
summary.Lexis Summarize transitions and risk time from a Lexis object

-- T --

tbox Draw boxes and arrows for illustration of multistate models.
thoro Thorotrast Study
timeBand Extract time band data from a split Lexis object
timeScales The time scales of a Lexis object
tmat Functions to facilitate analysis of multistate models.
tmat.Lexis Functions to facilitate analysis of multistate models.
transform.Lexis Transform a Lexis objects
twoby2 Analysis of a two by two table

-- W --

Wald Compute linear functions of parameters with s.e.