make_mstate_refpat.RdUtility function which allows to prepare one row of data.frame
to be fed into mstate::msfit for prediction.
make_mstate_refpat(refpat, tmat, covs)
| refpat | A single-row data.frane containing the covariate values to predict |
|---|---|
| tmat | Transition matrix |
| covs | Covariates used in the cause-specific Cox models |
tmat <- mstate::trans.comprisk(2, c("REL", "NRM")) covs <- c("age_allo1_decades", "mdsclass") ref_pat <- dat_mds_synth[1, ] ref_pat[] #> ci_s_allo1 ci_allo1 match_allo1_1 mdsclass donorrel #> 1 2 0.2617318 recipient female - donor male sAML Other #> karnofsk_allo1 crnocr cmv_combi_allo1_1 cytog_threecat hctci_risk #> 1 <NA> CR <NA> good(<=3) <NA> #> agedonor_allo1_decades age_allo1_decades #> 1 NA 5.647 make_mstate_refpat(ref_pat, tmat, covs) #> An object of class 'msdata' #> #> Data: #> ci_s_allo1 ci_allo1 match_allo1_1 mdsclass donorrel #> 1 2 0.2617318 recipient female - donor male sAML Other #> 2 2 0.2617318 recipient female - donor male sAML Other #> karnofsk_allo1 crnocr cmv_combi_allo1_1 cytog_threecat hctci_risk #> 1 <NA> CR <NA> good(<=3) <NA> #> 2 <NA> CR <NA> good(<=3) <NA> #> agedonor_allo1_decades age_allo1_decades trans age_allo1_decades.1 #> 1 NA 5.647 1 5.647 #> 2 NA 5.647 2 0.000 #> age_allo1_decades.2 mdsclass1.1 mdsclass1.2 mdsclass2.1 mdsclass2.2 strata #> 1 0.000 0 0 1 0 1 #> 2 5.647 0 0 0 1 2