Package: smcfcs 2.0.1

smcfcs: Multiple Imputation of Covariates by Substantive Model Compatible Fully Conditional Specification

Implements multiple imputation of missing covariates by Substantive Model Compatible Fully Conditional Specification. This is a modification of the popular FCS/chained equations multiple imputation approach, and allows imputation of missing covariate values from models which are compatible with the user specified substantive model.

Authors:Jonathan Bartlett [aut, cre], Ruth Keogh [aut], Edouard F. Bonneville [aut], Lars van der Burg [aut], Claus Thorn Ekstrøm [ctb]

smcfcs_2.0.1.tar.gz
smcfcs_2.0.1.zip(r-4.7)smcfcs_2.0.1.zip(r-4.6)smcfcs_2.0.1.zip(r-4.5)
smcfcs_2.0.1.tgz(r-4.6-any)smcfcs_2.0.1.tgz(r-4.5-any)
smcfcs_2.0.1.tar.gz(r-4.6-any)smcfcs_2.0.1.tar.gz(r-4.5-any)
smcfcs_2.0.1.tgz(r-4.5-emscripten)
smcfcs.pdf |smcfcs.html✨
smcfcs/json (API)

# Install 'smcfcs' in R:
install.packages('smcfcs', repos = c('https://jwb133.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/jwb133/smcfcs/issues

Datasets:
  • ex_cc - Simulated case cohort data
  • ex_coarsening - Simulated example data with a coarsened factor covariate
  • ex_compet - Simulated example data with competing risks outcome and partially observed covariates
  • ex_coxquad - Simulated example data with time to event outcome and quadratic covariate effects
  • ex_dtsam - Simulated discrete time survival data set
  • ex_finegray - Simulated example data with competing risks outcome and partially observed covariates
  • ex_flexsurv - Simulated example data with time-to-event Weibull outcome and two covariates
  • ex_lininter - Simulated example data with continuous outcome and interaction between two partially observed covariates
  • ex_linquad - Simulated example data with continuous outcome and quadratic covariate effects
  • ex_logisticquad - Simulated example data with binary outcome and quadratic covariate effects
  • ex_ncc - Simulated nested case-control data
  • ex_poisson - Simulated example data with count outcome, modelled using Poisson regression

On CRAN:

Conda:

8.76 score 14 stars 1 packages 76 scripts 3.7k downloads 8 mentions 7 exports 15 dependencies

Last updated from:55cc144beb. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64OK149
source / vignettesOK208
linux-release-x86_64OK148
macos-release-arm64OK94
macos-oldrel-arm64OK94
windows-develOK154
windows-releaseOK97
windows-oldrelOK104
wasm-releaseOK122

Exports:smcfcssmcfcs.casecohortsmcfcs.dtsamsmcfcs.finegraysmcfcs.flexsurvsmcfcs.nestedccsmcfcs.parallel

Dependencies:abindbackportsbrglm2checkmateenrichwithlatticeMASSMatrixnleqslvnnetnumDerivrlangstatmodsurvivalVGAM

smcfcs for coarsened factor covariates

Jonathan Bartlett and Lars van der Burg

Rendered fromcoarsening.Rmdusingknitr::rmarkdownon Apr 13 2026.

Last update: 2025-03-18
Started: 2025-03-13

smcfcs

Jonathan Bartlett

Rendered fromsmcfcs-vignette.Rmdusingknitr::rmarkdownon Apr 13 2026.

Last update: 2025-03-18
Started: 2015-01-15

smcfcs for covariate measurement error correction

Jonathan Bartlett

Rendered fromcoverror.Rmdusingknitr::rmarkdownon Apr 13 2026.

Last update: 2025-03-13
Started: 2025-03-13

Readme and manuals

Help Manual

Help pageTopics
Simulated case cohort dataex_cc
Simulated example data with a coarsened factor covariateex_coarsening
Simulated example data with competing risks outcome and partially observed covariatesex_compet
Simulated example data with time to event outcome and quadratic covariate effectsex_coxquad
Simulated discrete time survival data setex_dtsam
Simulated example data with competing risks outcome and partially observed covariatesex_finegray
Simulated example data with time-to-event Weibull outcome and two covariatesex_flexsurv
Simulated example data with continuous outcome and interaction between two partially observed covariatesex_lininter
Simulated example data with continuous outcome and quadratic covariate effectsex_linquad
Simulated example data with binary outcome and quadratic covariate effectsex_logisticquad
Simulated nested case-control dataex_ncc
Simulated example data with count outcome, modelled using Poisson regressionex_poisson
Assess convergence of a smcfcs objectplot.smcfcs
Substantive model compatible fully conditional specification imputation of covariates.smcfcs
Substantive model compatible fully conditional specification imputation of covariates for case cohort studiessmcfcs.casecohort
Substantive model compatible fully conditional specification imputation of covariates for discrete time survival analysissmcfcs.dtsam
Substantive model compatible fully conditional specification imputation of covariates for a Fine-Gray modelsmcfcs.finegray
Substantive model compatible fully conditional specification imputation of covariates and event times using flexible parametric survival modelssmcfcs.flexsurv
Substantive model compatible fully conditional specification imputation of covariates for nested case control studiessmcfcs.nestedcc
Parallel substantive model compatible imputationsmcfcs.parallel