Package index • mstate

All functions

Cuminc(): Calculate nonparametric cumulative incidence functions and associated standard errors

EBMT cause of death data ebmt2: Data from the European Society for Blood and Marrow Transplantation (EBMT)

EBMT data ebmt4: Data from the European Society for Blood and Marrow Transplantation (EBMT)

EBMT platelet recovery data ebmt3: Data from the European Society for Blood and Marrow Transplantation (EBMT)

EBMT year of relapse data ebmt1: Data from the European Society for Blood and Marrow Transplantation (EBMT)

ELOS(): Expected length of stay

LMAJ(): Landmark Aalen-Johansen method

Liver cirrhosis data prothr: Abnormal prothrombin levels in liver cirrhosis

MarkovTest(): Log-rank based test for the validity of the Markov assumption

aidssi aidssi2: Data from the Amsterdam Cohort Studies on HIV infection and AIDS

bmt: BMT data from Klein and Moeschberger

crprep(<default>): Function to create weighted data set for competing risks analyses

cutLMms(): Cut a multi-state data set at a landmark time point

etm2msdata(): Converts between etm and msdata format

events(): Count number of observed transitions

expand.covs(): Expand covariates in competing risks dataset in stacked format

expand.covs(<msdata>): Expand covariates in multi-state dataset in long format

haz_function(): Helper function that calculates excess and population hazards for a given transition

modify_transMat(): Upgrade the transMat object for the multi-state/relsurv setting.

msboot(): Bootstrap function in multi-state models

msboot.relsurv(): Bootstrap function for upgraded multi-state models using relsurv

msboot.relsurv.boot(): Default theta function used for msboot.relsurv

msdata2etm(): msdata to etm format

msfit(): Compute subject-specific transition hazards with (co-)variances

msfit.relsurv(): Extend a multi-state model using relative survival

msprep(): Function to prepare dataset for multi-state modeling in long format from dataset in wide format

mssample(): Sample paths through a multi-state model

mstate-package mstate: Data preparation, estimation and prediction in multi-state models

paths(): Find all possible trajectories through a given multi-state model

plot(<Cuminc>): Plot method for Cuminc objects

plot(<MarkovTest>): Plot method for a MarkovTest object

plot(<msfit>): Plot method for an msfit object

plot(<probtrans>): Plot method for a probtrans object

print(<MarkovTest>): Print method for a MarkovTest object

print(<msdata>): Print method for a msdata object

print(<summary.msfit>): Print method for summary.msfit object

print(<summary.probtrans>): Print method for a summary.probtrans object

probtrans(): Compute subject-specific or overall transition probabilities with standard errors

redrank(): Reduced rank proportional hazards model for competing risks and multi-state models

summary(<Cuminc>): Summary method for a summary.Cuminc object

summary(<msfit>): Summary method for an msfit object

summary(<probtrans>): Summary method for a probtrans object

trans2tra(): Convert transition matrix from mstate to etm format

transMat(): Define transition matrix for multi-state model

transhelp to.trans2 trans2Q absorbing is.circular: Help functions for transition matrix

varHaz.fixed(): Upgrade the varHaz object

vis.mirror.pt(): Mirror plot comparing two probtrans objects

vis.multiple.pt(): Visualise multiple probtrans objects

xsect(): Make a cross-section of multi-state data at a given time point