Biograph: Explore Life Histories

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Transition rates are computed from transitions and exposures.Useful graphics and life-course indicators are computed. The package structures the data for multistate statistical and demographic modeling of life histories.

Author
Frans Willekens
Date of publication
2016-03-31 17:50:43
Maintainer
Frans Willekens <willekens@nidi.nl>
License
GPL-2
Version
2.0.6

View on CRAN

Man pages

age_as_Date
Converts a vector of ages to object of class 'Date'.
age_as_year
Converts a vector of ages to decimal year (calendar year and...
AgeTrans
Ages at transition
Biograph.Lexis
Converts Biograph object to Lexis object of class "Lexis"
Biograph.long
Converts Biograph object to long format
Biograph.msm
Biograph to msm format
Biograph.mstate
Converts Biograph object to mstate object of class "msdata"
Biograph.mvna
Converts Biograph object to input data for mvna package
Biograph-package
Explore life histories (biographies, lifepaths)
ChangeObservationWindow.e
Changes observation window to period between two transitions
ChangeObservationWindow.t
Changes observation window to period between two points in...
check.par
Checks major characteristics of Biograph object
cmc_as_age
Converts date in Century Month Code (CMC) to age.
cmc_as_Date
Converts a vector of dates in Century Month Code (CMC) to...
cmc_as_year
Converts date in Century Month Code (CMC) to date in calendar...
Cumrates
Estimates cumulative transition rates
Date_as_age
Converts a vector of dates (class 'Date') to ages.
Date_as_cmc
Converts a vector of dates (class 'Date') to Century Month...
Date_as_year
Converts a vector of dates (class 'Date') to decimal year...
date_b
Converts dates in a Biograph object to dates in another...
date_convert
Converts vector of dates from one format to another
GLHS
GLHS data
GLHS.IllnessDeath
Illness-death model for job transitions
GLHS.trans
Transition matrix of illness-death model (tmat)
Lexis.lines
Draws Lexis diagram with lifelines for selected subjects
Lexislines.episodes
Draws Lexis diagram with lifelines for selected subjects
LexisOccExp
Displays occurrences, exposures and transition rates in a...
Lexispoints
Plot event dates and ages in Lexis diagram
Lexis.points
Plots ages and calendar years at transitions in Lexis diagram
locpath
Determines location of state sequence in Biograph object
MSLT
Multistate life table: survival function and exposure...
NLOG98
NLOG98 Netherlands Family and Fertility Survey 1998
Occup
State occupancies and sojourn times
OverviewEpisodes
Overview of episodes
OverviewTransitions
Overview of transitions
Parameters
Life history parameters from data
plot.cumrates
Plots cumulative transition rates
plot.MSLT.S
Plots survival function.
plot.occup.S
Plots state occupancies
pos.char
Position of a given character in a string variable (first...
pos.charstr
Position of a character string in a string variable
Rates.ac
Estimates occurrence-exposure rates
RateTable
Table for rate calculation
Remove.intrastate
Removes intrastate transitions from Biograph object
rrdat
The Blossfeld-Rohwer subsample of the German Life History...
SamplePath
Obtains samplepath for selected subjects
Sequences
Lists state sequences in the data
Sequences.ind
Individual state trajectories
Sequences.ind.0
Sorts dates in ascending order and generates state sequence...
state_age
Determines for given individuals state occupied at given ages
StateSpace
Get state space
state_time
Determines individual state occupation times
string.blank.omit
Removes blanks in character string, including the leading and...
stringf
Converts character string to vector
Trans
Transitions by age
TransitionAB
Occurrences of selected transition by age
transitions
Generate flow table
year_as_age
Converts decinal years to age.
year_as_cmc
Converts decinal years to cmc.
year_as_Date
Converts a vector of dates in decimal years (calendar years...
YearTrans
Converts dates at transition to years at transition

Files in this package

Biograph
Biograph/inst
Biograph/inst/NEWS.Rd
Biograph/inst/Doc
Biograph/inst/Doc/Biograph_Documentation.doc
Biograph/inst/Doc/create_NFHS.R
Biograph/inst/Doc/CreateBiographobjectM_Table12.pdf
Biograph/inst/Doc/create_simul.R
Biograph/inst/Doc/demos_GLHS.R
Biograph/inst/Doc/rrdat.txt
Biograph/inst/Doc/create_GLHS.R
Biograph/inst/Doc/demos_dates.R
Biograph/inst/Doc/Biograph_Documentation.pdf
Biograph/inst/Doc/create_SHARElife.R
Biograph/inst/Doc/create_ebmt.R
Biograph/inst/Doc/CreateBiographobjectM.doc
Biograph/inst/Doc/demos_NLOG98.R
Biograph/inst/Doc/create_Simple1a.R
Biograph/inst/Doc/CreateBiographobjectM.pdf
Biograph/inst/Doc/create_NLOG98.R
Biograph/inst/Doc/create_Simple1b.R
Biograph/inst/Doc/Biograph.pdf
Biograph/inst/Doc/create_Simple2.R
Biograph/NAMESPACE
Biograph/data
Biograph/data/GLHS.rda
Biograph/data/NLOG98.rda
Biograph/data/rrdat.rda
Biograph/R
Biograph/R/LexisOccExp.R
Biograph/R/cmc_as_year.R
Biograph/R/Sequences.ind.R
Biograph/R/ChangeObservationWindow.e.R
Biograph/R/Biograph.mvna.R
Biograph/R/OverviewEpisodes.R
Biograph/R/GLHS.IllnessDeath.R
Biograph/R/MSLT.e.R
Biograph/R/year_as_age.R
Biograph/R/Remove.intrastate.R
Biograph/R/OverviewTransitions.R
Biograph/R/Parameters.R
Biograph/R/Lexispoints.R
Biograph/R/date_b.R
Biograph/R/Date_as_year.R
Biograph/R/year_as_Date.R
Biograph/R/locpath.R
Biograph/R/state_age.R
Biograph/R/Cumrates.R
Biograph/R/check.par.R
Biograph/R/age_as_Date.R
Biograph/R/pos.char.R
Biograph/R/plot.cumrates.R
Biograph/R/Biograph.Lexis.R
Biograph/R/string.blank.omit.R
Biograph/R/Rates.ac.R
Biograph/R/Occup.R
Biograph/R/age_as_year.R
Biograph/R/Lexis.lines.R
Biograph/R/YearTrans.R
Biograph/R/Biograph.mstate.R
Biograph/R/date_convert.R
Biograph/R/cmc_as_Date.R
Biograph/R/MSLT.S.R
Biograph/R/transitions.R
Biograph/R/TransitionAB.R
Biograph/R/Date_as_cmc.R
Biograph/R/Biograph.long.R
Biograph/R/StateSpace.R
Biograph/R/Date_as_age.R
Biograph/R/GLHS.trans.R
Biograph/R/state_time.R
Biograph/R/stringf.R
Biograph/R/Lexislines.episodes.R
Biograph/R/Sequences.R
Biograph/R/plot.MSLT.S.R
Biograph/R/Trans.R
Biograph/R/ChangeObservationWindow.t.R
Biograph/R/cmc_as_age.R
Biograph/R/Lexis.points.R
Biograph/R/RateTable.R
Biograph/R/Biograph.msm.R
Biograph/R/Sequences.ind.0.R
Biograph/R/year_as_cmc.R
Biograph/R/pos.charstr.R
Biograph/R/plot.occup.S.R
Biograph/R/AgeTrans.R
Biograph/R/SamplePath.R
Biograph/MD5
Biograph/DESCRIPTION
Biograph/man
Biograph/man/Lexis.lines.Rd
Biograph/man/Sequences.ind.Rd
Biograph/man/RateTable.Rd
Biograph/man/TransitionAB.Rd
Biograph/man/Sequences.ind.0.Rd
Biograph/man/Lexis.points.Rd
Biograph/man/SamplePath.Rd
Biograph/man/transitions.Rd
Biograph/man/check.par.Rd
Biograph/man/Cumrates.Rd
Biograph/man/Biograph.Lexis.Rd
Biograph/man/date_convert.Rd
Biograph/man/MSLT.Rd
Biograph/man/OverviewEpisodes.Rd
Biograph/man/GLHS.trans.Rd
Biograph/man/Biograph.msm.Rd
Biograph/man/Biograph-package.Rd
Biograph/man/pos.charstr.Rd
Biograph/man/YearTrans.Rd
Biograph/man/cmc_as_year.Rd
Biograph/man/Biograph.long.Rd
Biograph/man/Date_as_age.Rd
Biograph/man/age_as_year.Rd
Biograph/man/date_b.Rd
Biograph/man/pos.char.Rd
Biograph/man/Rates.ac.Rd
Biograph/man/year_as_age.Rd
Biograph/man/Occup.Rd
Biograph/man/cmc_as_age.Rd
Biograph/man/Biograph.mstate.Rd
Biograph/man/plot.occup.S.Rd
Biograph/man/Date_as_year.Rd
Biograph/man/Parameters.Rd
Biograph/man/Date_as_cmc.Rd
Biograph/man/stringf.Rd
Biograph/man/Lexispoints.Rd
Biograph/man/GLHS.Rd
Biograph/man/Remove.intrastate.Rd
Biograph/man/Biograph.mvna.Rd
Biograph/man/ChangeObservationWindow.e.Rd
Biograph/man/GLHS.IllnessDeath.Rd
Biograph/man/NLOG98.Rd
Biograph/man/AgeTrans.Rd
Biograph/man/Lexislines.episodes.Rd
Biograph/man/age_as_Date.Rd
Biograph/man/cmc_as_Date.Rd
Biograph/man/year_as_Date.Rd
Biograph/man/plot.MSLT.S.Rd
Biograph/man/state_age.Rd
Biograph/man/year_as_cmc.Rd
Biograph/man/StateSpace.Rd
Biograph/man/state_time.Rd
Biograph/man/plot.cumrates.Rd
Biograph/man/Sequences.Rd
Biograph/man/string.blank.omit.Rd
Biograph/man/ChangeObservationWindow.t.Rd
Biograph/man/OverviewTransitions.Rd
Biograph/man/rrdat.Rd
Biograph/man/LexisOccExp.Rd
Biograph/man/locpath.Rd
Biograph/man/Trans.Rd
Biograph/INDEX