ctsem: Continuous Time Structural Equation Modelling

A multivariate continuous (and discrete) time dynamic modelling package for panel and time series data, using linear stochastic differential equations. Contains a faster frequentist set of functions using OpenMx for single subject and mixed-effects (random intercepts only) structural equation models, or a hierarchical Bayesian implementation using Stan that allows for random effects over all model parameters. Allows for modelling of multiple noisy measurements of multiple stochastic processes, time varying input / event covariates, and time invariant covariates used to predict the parameters.

AuthorCharles Driver [aut, cre, cph], Manuel Voelkle [aut, cph], Han Oud [aut, cph]
Date of publication2017-01-07 15:58:44
MaintainerCharles Driver <driver@mpib-berlin.mpg.de>
LicenseGPL-3
Version2.1.1
https://github.com/cdriveraus/ctsem

View on CRAN

Man pages

AnomAuth: AnomAuth

ctCI: ctCI Computes confidence intervals on specified parameters /...

ctCollapse: ctCollapse Easily collapse an array margin using a specified...

ctCompareExpected: ctCompareExpected Compares model implied to observed means...

ctDeintervalise: ctDeintervalise

ctDensity: ctDensity

ctDiscretePars: ctDiscretePars

ctExample1: ctExample1

ctExample1TIpred: ctExample1TIpred

ctExample2: ctExample2

ctExample2level: ctExample2level

ctExample3: ctExample3

ctExample4: ctExample4

ctFit: Fit a ctsem object

ctGenerate: ctGenerate

ctIndplot: ctIndplot

ctIntervalise: Converts absolute times to intervals for wide format ctsem...

ctKalman: ctKalman

ctLongToWide: ctLongToWide Restructures time series / panel data from long...

ctModel: Define a ctsem model

ctMultigroupFit: Fits a multiple group continuous time model.

ctPlot: ctPlot

ctPlotArray: Plots a three dimensional array

ctPoly: Plots uncertainty bands

ctRefineTo: ctRefineTo

ctsem: ctsem

ctStanContinuousPars: ctStanContinuousPars

ctStanDiscretePars: ctStanDiscretePars

ctStanDiscreteParsPlot: ctStanDiscreteParsPlot

ctStanFit: ctStanFit

ctStanKalman: ctStanKalman

ctStanKalmanPlot: ctStanKalmanPlot

ctStanParnames: ctStanParnames

ctStanPlotPost: ctStanPlotPost

ctstantestdat: ctstantestdat

ctstantestfit: ctstantestfit

ctStanTIpredeffects: Get time independent predictor effect estimates

ctWideNames: ctWideNames sets default column names for wide ctsem...

ctWideToLong: ctWideToLong Convert ctsem wide to long format

datastructure: datastructure

inv_logit: Inverse logit

longexample: longexample

Oscillating: Oscillating

plot.ctsemFit: Plotting function for object class ctsemFit

plot.ctsemMultigroupFit: Plot function for ctsemMultigroupFit object

plot.ctStanFit: plot.ctStanFit

plot.ctStanModel: Prior plotting

sdpcor2cov: sdcor2cov

summary.ctsemFit: Summary function for ctsemFit object

summary.ctsemMultigroupFit: Summary function for ctsemMultigroupFit object

summary.ctStanFit: summary.ctStanFit

Files in this package

ctsem
ctsem/inst
ctsem/inst/CITATION
ctsem/inst/doc
ctsem/inst/doc/ctsem.R
ctsem/inst/doc/ctsem.rnw
ctsem/inst/doc/hierarchical.R
ctsem/inst/doc/hierarchical.rnw
ctsem/inst/doc/hierarchical.pdf
ctsem/inst/doc/ctsem.pdf
ctsem/tests
ctsem/tests/testthat
ctsem/tests/testthat/test-reshaping.R
ctsem/tests/testthat/test-knownFits.R
ctsem/tests/testthat/test-intervalise.R
ctsem/tests/testthat/test-objectiveEquiv.R
ctsem/tests/testthat/ctStanFitTests.R
ctsem/NAMESPACE
ctsem/NEWS
ctsem/data
ctsem/data/longexample.rda
ctsem/data/ctstantestdat.rda
ctsem/data/AnomAuth.rda
ctsem/data/ctExample1.rda
ctsem/data/ctExample1TIpred.rda
ctsem/data/ctstantestfit.rda
ctsem/data/Oscillating.rda
ctsem/data/ctExample2.rda
ctsem/data/ctExample4.rda
ctsem/data/ctExample3.rda
ctsem/data/datastructure.rda
ctsem/R
ctsem/R/ctsem.R ctsem/R/ctDeintervalise.R ctsem/R/ctDataHelp.R ctsem/R/ctStanKalman.R
ctsem/R/ctLongtowide.r
ctsem/R/ctModel.R ctsem/R/ctWideToLong.R ctsem/R/ctStanModel.R ctsem/R/plot.ctStanFit.R ctsem/R/ctDiscretePars.R ctsem/R/plot.ctsemFit.R ctsem/R/ctRefineTo.R ctsem/R/summary.ctsemFit.R ctsem/R/plot.ctStanModel.R ctsem/R/ctsemUtils.R ctsem/R/ctCompareExpectation.R ctsem/R/ctStanPlotPost.R ctsem/R/sdpcor2cov.R ctsem/R/ctIntervalise.R ctsem/R/ctLabel.R ctsem/R/ctCI.R ctsem/R/ctStanSummary.R ctsem/R/ctKalman.R ctsem/R/ctStanTIpredeffects.R ctsem/R/ctFit.R ctsem/R/ctGenerate.R ctsem/R/ctStanFit.R ctsem/R/ctIndplot.R ctsem/R/ctMultigroupFit.R
ctsem/vignettes
ctsem/vignettes/ctsem.rnw
ctsem/vignettes/pathdiagramtwoprocessbasic.pdf
ctsem/vignettes/hierarchical.rnw
ctsem/vignettes/pathdiagramdiscretecomparison.png
ctsem/vignettes/hierarchicalreferences.bib
ctsem/vignettes/references.bib
ctsem/vignettes/pathdiagramtwoprocessfull2.pdf
ctsem/README.md
ctsem/MD5
ctsem/build
ctsem/build/vignette.rds
ctsem/DESCRIPTION
ctsem/man
ctsem/man/ctPoly.Rd ctsem/man/plot.ctStanFit.Rd ctsem/man/plot.ctStanModel.Rd ctsem/man/ctPlot.Rd ctsem/man/ctLongToWide.Rd ctsem/man/ctStanDiscreteParsPlot.Rd ctsem/man/ctStanKalman.Rd ctsem/man/ctStanPlotPost.Rd ctsem/man/ctstantestfit.Rd ctsem/man/ctIntervalise.Rd ctsem/man/ctDeintervalise.Rd ctsem/man/ctStanDiscretePars.Rd ctsem/man/ctWideNames.Rd ctsem/man/ctMultigroupFit.Rd ctsem/man/plot.ctsemMultigroupFit.Rd ctsem/man/ctStanContinuousPars.Rd ctsem/man/ctPlotArray.Rd ctsem/man/ctCI.Rd ctsem/man/ctFit.Rd ctsem/man/ctExample2.Rd ctsem/man/ctKalman.Rd ctsem/man/sdpcor2cov.Rd ctsem/man/ctExample2level.Rd ctsem/man/summary.ctStanFit.Rd ctsem/man/ctModel.Rd ctsem/man/ctIndplot.Rd ctsem/man/ctDensity.Rd ctsem/man/ctStanParnames.Rd ctsem/man/ctDiscretePars.Rd ctsem/man/ctsem.Rd ctsem/man/ctExample1TIpred.Rd ctsem/man/inv_logit.Rd ctsem/man/ctExample1.Rd ctsem/man/ctWideToLong.Rd ctsem/man/summary.ctsemMultigroupFit.Rd ctsem/man/ctStanKalmanPlot.Rd ctsem/man/plot.ctsemFit.Rd ctsem/man/ctGenerate.Rd ctsem/man/datastructure.Rd ctsem/man/ctStanFit.Rd ctsem/man/ctExample4.Rd ctsem/man/ctCollapse.Rd ctsem/man/ctstantestdat.Rd ctsem/man/summary.ctsemFit.Rd ctsem/man/ctStanTIpredeffects.Rd ctsem/man/ctExample3.Rd ctsem/man/longexample.Rd ctsem/man/ctRefineTo.Rd ctsem/man/ctCompareExpected.Rd ctsem/man/AnomAuth.Rd ctsem/man/Oscillating.Rd

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