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.Rproj.user
.Rproj.user
 
 
NMF_25819be113c
NMF_25819be113c
 
 
conflict
conflict
 
 
.RData
.RData
 
 
.Rhistory
.Rhistory
 
 
.dropbox.attr
.dropbox.attr
 
 
.gitignore
.gitignore
 
 
10Repetition.R
10Repetition.R
 
 
10RepetitionAl.R
10RepetitionAl.R
 
 
2Dvizualization.R
2Dvizualization.R
 
 
ABCvizualization.R
ABCvizualization.R
 
 
C-indexCalc.R
C-indexCalc.R
 
 
Combined.pdf
Combined.pdf
 
 
DPplusAFT.Rproj
DPplusAFT.Rproj
 
 
DiagDPMMM.TEST.R
DiagDPMMM.TEST.R
 
 
GESimulatePredictD10K30C.R
GESimulatePredictD10K30C.R
 
 
GESimulatePredictD50K30C.R
GESimulatePredictD50K30C.R
 
 
GESimulationFINAL.R
GESimulationFINAL.R
 
 
GEsimulate.R
GEsimulate.R
 
 
GEsimulateD20K2I1C1DIAGONAL.R
GEsimulateD20K2I1C1DIAGONAL.R
 
 
KEYVIP (Case Conflict).R
KEYVIP (Case Conflict).R
 
 
KEYVIP.R
KEYVIP.R
 
 
KEY_prostrate.R
KEY_prostrate.R
 
 
NiklasVIP.R
NiklasVIP.R
 
 
PathwayScores.R
PathwayScores.R
 
 
PathwayScoresVerhaark.R
PathwayScoresVerhaark.R
 
 
Readme.txt
Readme.txt
 
 
Readme.txt~
Readme.txt~
 
 
SIMULATIONSRandIndex.R
SIMULATIONSRandIndex.R
 
 
SIManalyzeDPMM.R
SIManalyzeDPMM.R
 
 
SIMgroundtruth.R
SIMgroundtruth.R
 
 
Simulation_MAIN.R
Simulation_MAIN.R
 
 
Simulations.RData
Simulations.RData
 
 
TEST.SIMULATIONS.GENERAL.R
TEST.SIMULATIONS.GENERAL.R
 
 
TEST.SUMLATIONS.GROUNDtruth.R
TEST.SUMLATIONS.GROUNDtruth.R
 
 
TestPosteriorAFT.R
TestPosteriorAFT.R
 
 
ToyDataABCConference.RData
ToyDataABCConference.RData
 
 
VIP.pdf
VIP.pdf
 
 
Verhaak.pdf
Verhaak.pdf
 
 
VerhaarkRun.R
VerhaarkRun.R
 
 
betahatVIP.csv
betahatVIP.csv
 
 
burninDPMM.R
burninDPMM.R
 
 
calR2error.R
calR2error.R
 
 
calcbrier.R
calcbrier.R
 
 
calcindex.R
calcindex.R
 
 
calcrmse.R
calcrmse.R
 
 
cindexrandom.R
cindexrandom.R
 
 
clanc.R
clanc.R
 
 
dirichletmixture.R
dirichletmixture.R
 
 
flexloglikelihood.R
flexloglikelihood.R
 
 
flexmixBLASSO.R
flexmixBLASSO.R
 
 
flexposteriorchineseAFT.R
flexposteriorchineseAFT.R
 
 
full.testD100K31I1C.R
full.testD100K31I1C.R
 
 
gibbsDPMM.R
gibbsDPMM.R
 
 
hs_err_pid7811.log
hs_err_pid7811.log
 
 
iSIMgroundtruth.R
iSIMgroundtruth.R
 
 
importDP.R
importDP.R
 
 
initializeDPMM.R
initializeDPMM.R
 
 
inversetoy.R
inversetoy.R
 
 
keyBeer.R
keyBeer.R
 
 
keyVIP_New.R
keyVIP_New.R
 
 
keyVIP_NewZ.R
keyVIP_NewZ.R
 
 
keyVV.R
keyVV.R
 
 
keyVantVeer.R
keyVantVeer.R
 
 
keyVerhaakFINAL.R
keyVerhaakFINAL.R
 
 
keyVerhaakFINALpathway.R
keyVerhaakFINALpathway.R
 
 
keyVijver.R
keyVijver.R
 
 
kmeansAIC.R
kmeansAIC.R
 
 
kmeansBlasso.R
kmeansBlasso.R
 
 
kmeansinit.R
kmeansinit.R
 
 
likelihood.R
likelihood.R
 
 
multiplot.R
multiplot.R
 
 
pathway.R
pathway.R
 
 
posteriorAFTonlyGMM.R
posteriorAFTonlyGMM.R
 
 
posteriorGMMparametrs.R
posteriorGMMparametrs.R
 
 
posterioralpha.R
posterioralpha.R
 
 
posteriorbeta.R
posteriorbeta.R
 
 
posteriorchineseAFT.R
posteriorchineseAFT.R
 
 
posteriorchineseAFTplus.R
posteriorchineseAFTplus.R
 
 
posteriorhyper.R
posteriorhyper.R
 
 
posteriorhyperPLUS.R
posteriorhyperPLUS.R
 
 
posteriortimeparameters.R
posteriortimeparameters.R
 
 
preBeer-only1dataset.R
preBeer-only1dataset.R
 
 
preBeer.R
preBeer.R
 
 
preVIJVER.R
preVIJVER.R
 
 
preVIP_new.R
preVIP_new.R
 
 
preVIP_new_Z.R
preVIP_new_Z.R
 
 
preVerhaak.R
preVerhaak.R
 
 
preVerhaakCox.R
preVerhaakCox.R
 
 
preVerhaakFINAL.R
preVerhaakFINAL.R
 
 
predict.R
predict.R
 
 
predictCLASS.R
predictCLASS.R
 
 
predictCLUSTER.R
predictCLUSTER.R
 
 
predictchineseAFT.R
predictchineseAFT.R
 
 
predictchineseAFTtime.R
predictchineseAFTtime.R
 
 
predictionGroundTruth.R
predictionGroundTruth.R
 
 
predictlinear.R
predictlinear.R
 
 
predictrisk.R
predictrisk.R
 
 
predicttime.R
predicttime.R
 
 
premium.R
premium.R
 
 

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This project implements a Dirichlet Process Mixture Model. 
All the code has been written in R.
The file Simulatioin_MAIN.R contains the code for simulating the data and running the model.

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The Dirichlet Process Mixture Model provides a fully Bayesian analysis for the inference of clusters and their parameters.

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