Package: JMbayes2 0.6-0

JMbayes2: Extended Joint Models for Longitudinal and Time-to-Event Data

Fit joint models for longitudinal and time-to-event data under the Bayesian approach. Multiple longitudinal outcomes of mixed type (continuous/categorical) and multiple event times (competing risks and multi-state processes) are accommodated. Rizopoulos (2012, ISBN:9781439872864).

Authors:Dimitris Rizopoulos [aut, cre], Pedro Miranda-Afonso [aut], Grigorios Papageorgiou [aut]

JMbayes2_0.6-0.tar.gz
JMbayes2_0.6-0.zip(r-4.7)JMbayes2_0.6-0.zip(r-4.6)JMbayes2_0.6-0.zip(r-4.5)
JMbayes2_0.6-0.tgz(r-4.6-x86_64)JMbayes2_0.6-0.tgz(r-4.6-arm64)JMbayes2_0.6-0.tgz(r-4.5-x86_64)JMbayes2_0.6-0.tgz(r-4.5-arm64)
JMbayes2_0.6-0.tar.gz(r-4.7-arm64)JMbayes2_0.6-0.tar.gz(r-4.7-x86_64)JMbayes2_0.6-0.tar.gz(r-4.6-arm64)JMbayes2_0.6-0.tar.gz(r-4.6-x86_64)
JMbayes2_0.6-0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
JMbayes2/json (API)
NEWS

# Install 'JMbayes2' in R:

install.packages('JMbayes2', repos = c('https://drizopoulos.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/drizopoulos/jmbayes2/issues

Pkgdown/docs site:https://drizopoulos.github.io

Uses libs:

openblas– Optimized BLAS
c++– GNU Standard C++ Library v3
openmp– GCC OpenMP (GOMP) support library

Datasets:

aids - Didanosine versus Zalcitabine in HIV Patients
aids.id - Didanosine versus Zalcitabine in HIV Patients
pbc2 - Mayo Clinic Primary Biliary Cirrhosis Data
pbc2.id - Mayo Clinic Primary Biliary Cirrhosis Data
prothro - Prednisone versus Placebo in Liver Cirrhosis Patients
prothros - Prednisone versus Placebo in Liver Cirrhosis Patients

On CRAN:

competing-risks longitudinal-analysis mixed-models multi-state personalized-medicine precision-medicine prediction-model survival-models openblas cpp openmp

9.13 score 99 stars 2 packages 373 scripts 1.1k downloads 51 exports 31 dependencies

Last updated from:683f9b53f8. Checks:13 OK. Indexed: yes.

Target	Result	Time
linux-devel-arm64	OK	291
linux-devel-x86_64	OK	200
source / vignettes	OK	221
linux-release-arm64	OK	179
linux-release-x86_64	OK	164
macos-release-arm64	OK	148
macos-release-x86_64	OK	269
macos-oldrel-arm64	OK	111
macos-oldrel-x86_64	OK	358
windows-devel	OK	230
windows-release	OK	265
windows-oldrel	OK	180
wasm-release	OK	136

Exports:acceleration area calibration_metrics calibration_plot coef coefs compare_jm consensus coxph create_folds crisk_setup cumuplot Delta densplot Dexp Dexpit family fixef gelman_diag ggdensityplot ggtraceplot jm lme mixed_model model.frame model.matrix poly2 poly3 poly4 ppcheck ranef rc_setup slicer slope terms traceplot tv tvAUC tvBrier tvEPCE tvROC vabs value variogram velocity vexp vexpit vlog vlog10 vlog2 vsqrt

Dependencies:abind cli coda cpp11 farver ggplot2 GLMMadaptive glue gridExtra gtable isoband labeling lattice lifecycle MASS Matrix matrixStats nlme parallelly R6 RColorBrewer Rcpp RcppArmadillo rlang S7 scales survC1 survival vctrs viridisLite withr

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Time-Dependent Predictive Accuracy Measures for Joint Models	calibration_metrics calibration_plot calibration_plot.jm create_folds tvAUC tvAUC.jm tvAUC.tvROC tvBrier tvBrier.jm tvEPCE tvROC tvROC.jm
Didanosine versus Zalcitabine in HIV Patients	aids aids.id
Consensus Combination of Posterior Draws from Joint Model Fits	consensus
Transform Competing Risks Data in Long Format	crisk_setup
Joint Models for Longitudinal and Time-to-Event Data	acceleration area coefs Delta Dexp Dexpit jm poly2 poly3 poly4 slope tv vabs value velocity vexp vexpit vlog vlog10 vlog2 vsqrt
Various Methods for Functions from the _coda_ Package	coda_methods.jm cumuplot cumuplot.jm densplot densplot.jm gelman_diag gelman_diag.jm ggdensityplot ggdensityplot.jm ggtraceplot ggtraceplot.jm traceplot traceplot.jm
Various Methods for Standard Generics	coef coef.jm compare_jm family family.jm fixef fixef.jm get_links get_links.jm methods.jm model.frame model.frame.jm model.matrix model.matrix.jm ranef ranef.jm terms terms.jm
Extended Joint Models for Longitudinal and Time-to-Event Data	JMbayes2-package JMbayes2
Slice-aware model fitting generics	coxph lme mixed_model
Mayo Clinic Primary Biliary Cirrhosis Data	pbc2 pbc2.id
Posterior Predictive Checks for Joint Models	ppcheck
Predictions from Joint Models	plot.predict_jm predict.jm predict.jmList
Prednisone versus Placebo in Liver Cirrhosis Patients	prothro prothros
Combine Recurring and Terminal Event Data in Long Format	rc_setup
Split Longitudinal and Survival Data into Subject-level Samples	slicer
Variogram for Longitudinal Data	variogram