AaJ The Aalen-Johansen estimator of state probabilities from a multistate 'Lexis' object. B.dk Births in Denmark by year and month of birth and sex BrCa Clinical status, relapse, metastasis and death in 2982 women with breast cancer. DMconv Conversion to diabetes DMepi Epidemiological rates for diabetes in Denmark 1996-2015 DMlate The Danish National Diabetes Register. Epi Epi: Functions for manipulation and statistical analysis of epidemiological data Icens Fits a regression model to interval censored data. LCa.fit Fit Lee-Carter-type models for rates to arbitrarily shaped observations of rates in a Lexis diagram. Lexis Create a Lexis object of follow-up Lexis.diagram Plot a Lexis diagram Lexis.lines Draw life lines in a Lexis diagram. Lexis2msm Convert a Lexis obejct to a data set suitable for input to the 'msm:msm' function. LexisScarf Generate a knitting pattern for a tube-shaped scarf with Lexis lines Life.lines Compute dates/ages for life lines in a Lexis diagram M.dk Mortality in Denmark 1974 ff. N.dk Population size in Denmark N2Y Create risk time ("Person-Years") in Lexis triangles from population count data. NArray Set up an array of NAs, solely from the list of dimnames Ns Natural splines - (cubic splines linear beyond outermost knots) with convenient specification of knots and possibility of centering, detrending and clamping. ROC Function to compute and draw ROC-curves. Relevel Reorder and combine levels of a factor S.typh Salmonella Typhimurium outbreak 1996 in Denmark. Termplot A wrapper for 'termplot' that optionally (but by default) exponentiates terms, and plot them on a common log-scale. Also scales x-axes to the same physical scale. Y.dk Population risk time in Denmark addCov Add covariates (typically clinical measurements) taken at known times to a Lexis object. addDrug Expand a Lexis object with information of drug exposure based on purchase dates and -amounts adtte2Lexis Create a Lexis Object Given an ADAM ADTTE Dataset. apc.LCa Fit Age-Period-Cohort models and Lee-Carter models with effects modeled by natural splines. 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 in an APC-frame. bdendo A case-control study of endometrial cancer births Births in a London Hospital blcaIT Bladder cancer mortality in Italian males bootLexis Create a bootstrap sample of persons (as identified by 'lex.id') from a Lexis object boxes.MS Draw boxes and arrows for illustration of multistate models. brv Bereavement in an elderly cohort cal.yr Functions to convert character, factor and various date objects into a number, and vice versa. cbind.Lexis Combining a Lexis objects with data frames or other Lexis objects ccwc Generate a nested case-control study ci.Crisk Compute cumulative risks and expected sojourn times from models for cause-specific rates. ci.cum Compute cumulative sum of estimates. ci.eta Linear predictor ('eta') from a formula, coefficients, vcov and a prediction frame. ci.lin Compute linear functions of parameters with standard errors and confidence limits, optionally transforming to a different scale. ci.pd Compute confidence limits for a difference of two independent proportions. clogistic Conditional logistic regression contr.cum Contrast matrices count Special functions for use in stat.table crr.Lexis Fit a competing risks regression model (Fine-Gray model) using a Lexis object) cutLexis Cut follow-up at a specified date for each person. detrend Projection of a model matrix on the orthogonal complement of a trend or curvature. diet Diet and heart data effx Function to calculate effects effx.match Function to calculate effects for individually matched case-control studies entry Time series and other methods for Lexis objects erl Compute survival functions from rates and expected residual lifetime in an illness-death model as well as years of life lost to disease. ewrates Rates of lung and nasal cancer mortality, and total mortality. expand.data Function to expand data for regression analysis of interval censored data. fit.add Fit an additive 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 gen.exp Generate covariates for drug-exposure follow-up from drug purchase records. glmLexis Fit intensity models to follow-up data in Lexis objects gmortDK Population mortality rates for Denmark in 5-years age groups. harm Create a basis of harmonic functions. hivDK hivDK: seroconversion in a cohort of Danish men in.span Is 'x' in the column span of matrix 'A' and what columns are linearly dependent? legendbox Draw a box with text explaining the numbers in and between boxes from 'boxes.MS' and 'boxes.Lexis' lep An unmatched case-control study of leprosy incidence lgrep Convenience versions of grep lls Functions to manage and explore the workspace lungDK Male lung cancer incidence in Denmark mat2pol Plot columns of a matrix as stacked areas. matshade Plot confidence intervals as shaded areas around lines. mcutLexis Cut follow-up at multiple event dates and keep track of order of events 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 data structures suitable for use with packages 'mstate' or 'etm'. ncut Function to group a variable in intervals. nice Nice breakpoints for axes on plots nickel A Cohort of Nickel Smelters in South Wales occup A small occupational cohort overlap.Lexis Check if records in a Lexis object represent overlapping epochs paths.Lexis Generate paths traveled through a Lexis multistate model data frame. pc.lines Plot period and cohort effects in an APC-frame. pctab Create percentages in a table plot.Lexis Lexis diagrams plot.apc Plot the estimates from a fitted Age-Period-Cohort model plotCIF Plotting Aalen-Johansen curves for competing events plotEst Plot estimates with confidence limits (forest plot) plotevent Plot Equivalence Classes poisreg Family Object for Poisson Regression pr Diabetes prevance as of 2010-01-01 in Denmark projection.ip Projection of columns of a matrix. rateplot Functions to plot rates from a table classified by age and calendar time (period) rcutLexis A function to cut follow-up at intermediate event times. rm.tr Remove transitions from a Lexis object. simLexis Simulate a Lexis object representing follow-up in a multistate model. splitLexis Split follow-up time in a Lexis object stack.Lexis Functions to facilitate analysis of multistate models. stat.table Tables of summary statistics steno2 Clinical trial: Steno2 baseline and follow-up. subset.Lexis Subsetting Lexis (and stacked.Lexis) objects summary.Lexis Summarize transitions and risk time from a Lexis object testisDK Testis cancer incidence in Denmark, 1943-1996 thoro Thorotrast Study timeBand Extract time band data from a split Lexis object timeScales The time scales of a Lexis object transform.Lexis Transform a Lexis (or stacked.Lexis) object twoby2 Analysis of a two by two table unLexis Remove Lexis attributes from a 'Lexis' object. xcutLexis Cut follow-up in a 'Lexis' object by event date(s) while preserving the original states.