├── .autotools ├── .cproject ├── .project ├── .settings └── language.settings.xml ├── Makefile ├── Makefiles ├── Makefile_linux1 ├── Makefile_linux2 └── Makefile_macOS ├── Makefile~ ├── README.md ├── data ├── sim123 │ ├── allData_mar.RData │ ├── allData_nmar.RData │ ├── allData_trulab.RData │ ├── metaData_labOnly_mar.txt │ ├── metaData_labOnly_nmar.txt │ ├── metaData_labOnly_trulab.txt │ ├── metaData_mar.txt │ ├── metaData_nmar.txt │ ├── metaData_trulab.txt │ ├── simdata_labOnly_simpars_mar.RData │ ├── simdata_labOnly_simpars_nmar.RData │ ├── simdata_labOnly_simpars_trulab.RData │ ├── simdata_simpars_mar.RData │ ├── simdata_simpars_nmar.RData │ ├── simdata_simpars_trulab.RData │ ├── simpars_mar.RData │ ├── simpars_nmar.RData │ ├── simpars_trulab.RData │ ├── testData_labOnly_mar.txt │ ├── testData_labOnly_nmar.txt │ ├── testData_labOnly_nmar_iter0_thetaTest.csv │ ├── testData_labOnly_nmar_iter1235_thetaTest.csv │ ├── testData_labOnly_nmar_iter149_thetaTest.csv │ ├── testData_labOnly_nmar_iter199_thetaTest.csv │ ├── testData_labOnly_nmar_iter19_thetaTest.csv │ ├── testData_labOnly_nmar_iter1_thetaTest.csv │ ├── testData_labOnly_nmar_iter299_thetaTest.csv │ ├── testData_labOnly_nmar_iter499_thetaTest.csv │ ├── testData_labOnly_nmar_iter49_thetaTest.csv │ ├── testData_labOnly_nmar_iter4_thetaTest.csv │ ├── testData_labOnly_nmar_iter999_thetaTest.csv │ ├── testData_labOnly_nmar_iter99_thetaTest.csv │ ├── testData_labOnly_nmar_iter9_thetaTest.csv │ ├── testData_labOnly_nmar_logPredLik.txt │ ├── testData_labOnly_nmar_testPat_obsPhe.csv │ ├── testData_labOnly_nmar_testPat_tarPhe.csv │ ├── testData_labOnly_trulab.txt │ ├── testData_mar.txt │ ├── testData_nmar.txt │ ├── testData_nmar_SJCVB0_nmar_K10_B100_iter1_logPredLik.txt │ ├── testData_nmar_SJCVB0_nmar_K10_B100_iter4_logPredLik.txt │ ├── testData_nmar_SJCVB0_nmar_K10_B100_iter9_logPredLik.txt │ ├── testData_trulab.txt │ ├── trainData_labOnly_mar.txt │ ├── trainData_labOnly_nmar.txt │ ├── trainData_labOnly_trulab.txt │ ├── trainData_mar.txt │ ├── trainData_nmar.txt │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter0_alpha.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter0_beta.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter0_eta.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter0_eta_normalized.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter0_miscnt.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter0_obscnt.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter0_phi.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter0_phi_normalized.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter0_psi.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter0_psiHyper.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter0_zeta.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter1_alpha.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter1_beta.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter1_eta.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter1_eta_normalized.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter1_logTrainLik.txt │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter1_miscnt.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter1_obscnt.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter1_phi.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter1_phi_normalized.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter1_psi.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter1_psiHyper.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter1_trainTime.txt │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter1_zeta.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter4_alpha.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter4_beta.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter4_eta.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter4_eta_normalized.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter4_logTrainLik.txt │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter4_miscnt.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter4_obscnt.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter4_phi.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter4_phi_normalized.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter4_psi.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter4_psiHyper.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter4_trainTime.txt │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter4_zeta.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter9_alpha.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter9_beta.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter9_eta.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter9_eta_normalized.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter9_logTrainLik.txt │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter9_miscnt.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter9_obscnt.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter9_phi.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter9_phi_normalized.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter9_psi.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter9_psiHyper.csv │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter9_trainTime.txt │ ├── trainData_nmar_SJCVB0_nmar_K10_B100_iter9_zeta.csv │ └── trainData_trulab.txt └── trash │ ├── simdata.txt │ ├── simdata_JCVB0_iter10_a.csv │ ├── simdata_JCVB0_iter10_alpha.csv │ ├── simdata_JCVB0_iter10_b.csv │ ├── simdata_JCVB0_iter10_eta.csv │ ├── simdata_JCVB0_iter10_missingCnt.csv │ ├── simdata_JCVB0_iter10_observedCnt.csv │ ├── simdata_JCVB0_iter10_phi.csv │ ├── simdata_JCVB0_iter10_thetaTest.csv │ ├── simdata_JCVB0_iter10_thetaTrain.csv │ ├── simdata_JCVB0_iter10_zeta.csv │ ├── simdata_JCVB0_iter1_a.csv │ ├── simdata_JCVB0_iter1_alpha.csv │ ├── simdata_JCVB0_iter1_b.csv │ ├── simdata_JCVB0_iter1_eta.csv │ ├── simdata_JCVB0_iter1_missingCnt.csv │ ├── simdata_JCVB0_iter1_observedCnt.csv │ ├── simdata_JCVB0_iter1_phi.csv │ ├── simdata_JCVB0_iter1_thetaTest.csv │ ├── simdata_JCVB0_iter1_thetaTrain.csv │ ├── simdata_JCVB0_iter1_zeta.csv │ ├── simdata_JCVB0_iter2_a.csv │ ├── simdata_JCVB0_iter2_alpha.csv │ ├── simdata_JCVB0_iter2_b.csv │ ├── simdata_JCVB0_iter2_eta.csv │ ├── simdata_JCVB0_iter2_missingCnt.csv │ ├── simdata_JCVB0_iter2_observedCnt.csv │ ├── simdata_JCVB0_iter2_phi.csv │ ├── simdata_JCVB0_iter2_thetaTest.csv │ ├── simdata_JCVB0_iter2_thetaTrain.csv │ ├── simdata_JCVB0_iter2_zeta.csv │ ├── simdata_JCVB0_iter5_a.csv │ ├── simdata_JCVB0_iter5_alpha.csv │ ├── simdata_JCVB0_iter5_b.csv │ ├── simdata_JCVB0_iter5_eta.csv │ ├── simdata_JCVB0_iter5_missingCnt.csv │ ├── simdata_JCVB0_iter5_observedCnt.csv │ ├── simdata_JCVB0_iter5_phi.csv │ ├── simdata_JCVB0_iter5_thetaTest.csv │ ├── simdata_JCVB0_iter5_thetaTrain.csv │ ├── simdata_JCVB0_iter5_zeta.csv │ └── simmeta.txt ├── examples ├── simdata.txt ├── simdata_new.txt ├── simdata_testPat_obsPhe.csv ├── simdata_testPat_tarPhe.csv ├── simdocs.txt ├── simmeta.txt ├── toydata.txt ├── toydata2.txt ├── toydata3.txt ├── toydata3_bk.txt ├── toydata3_testPat_obsPhe.csv ├── toydata3_testPat_tarPhe.csv ├── toydata_testPat_obsPhe.csv ├── toydata_testPat_tarPhe.csv ├── toymeta.txt ├── toymeta3.txt ├── toymeta3_lab.txt ├── toymeta3_phe.txt ├── toymeta_lab.txt └── toymeta_phe.txt ├── images ├── code_prediction.ai ├── code_prediction.png ├── ehr_code_prediction.eps ├── ehr_code_prediction.png ├── heatmap.png ├── lab_imputation.ai ├── lab_imputation.png └── mixehr_overview.png ├── mixehr.Rproj ├── mixmimic.sh ├── mixmimic ├── ehrFeatId.RData ├── mimic_meta.txt.gz └── mimic_trainData.txt.gz ├── mixmimic_testpat.sh └── src ├── JCVB0.cpp ├── JCVB0.h ├── LabParams.h ├── MixEHR.cpp ├── MixEHR.h ├── Patient.cpp ├── Patient.h ├── PatientBatch.cpp ├── PatientBatch.h ├── PheParams.h ├── SJCVB0.cpp ├── SJCVB0.h ├── debug_test_files ├── Makefile ├── algo ├── pairkeyhash.h ├── test_algo.cpp ├── test_algo.o ├── test_arma ├── test_arma.cpp ├── test_module.cpp ├── test_module.h ├── test_module.o └── testhash.cpp ├── loglik.cpp ├── main.cpp ├── pairkeyhash.h ├── parseData.cpp 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