Files in novasmedley/gbmSpm
Find predictive sequential patterns for clinical glioblastoma patients
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
R/data_callDatabase.R
R/data_discretize.R
R/data_getFake.R
R/data_partition.R
R/data_preprocess.R
R/logit_control.R
R/plot_performance.R
R/spm_getPatterns.R
R/spm_myHelpers.R
README.md
data/fake_data.RData
data/features_ratechange_sup0.4g60l2z2.RData
data/gbm_spm_example_multi/spm/sup0.25g60l2z2/featureVectors_percentChange.rds
data/gbm_spm_example_multi/spm/sup0.25g60l2z2/featureVectors_rateChange.rds
data/gbm_spm_example_multi/spm/sup0.25g60l2z2/patterns_percentChange.rds
data/gbm_spm_example_multi/spm/sup0.25g60l2z2/patterns_rateChange.rds
data/gbm_spm_example_multi/spm/sup0.2g60l2z2/featureVectors_percentChange.rds
data/gbm_spm_example_multi/spm/sup0.2g60l2z2/featureVectors_rateChange.rds
data/gbm_spm_example_multi/spm/sup0.2g60l2z2/patterns_percentChange.rds
data/gbm_spm_example_multi/spm/sup0.2g60l2z2/patterns_rateChange.rds
data/gbm_spm_example_multi/spm/sup0.35g60l2z2/featureVectors_percentChange.rds
data/gbm_spm_example_multi/spm/sup0.35g60l2z2/featureVectors_rateChange.rds
data/gbm_spm_example_multi/spm/sup0.35g60l2z2/patterns_percentChange.rds
data/gbm_spm_example_multi/spm/sup0.35g60l2z2/patterns_rateChange.rds
data/gbm_spm_example_multi/spm/sup0.3g60l2z2/featureVectors_percentChange.rds
data/gbm_spm_example_multi/spm/sup0.3g60l2z2/featureVectors_rateChange.rds
data/gbm_spm_example_multi/spm/sup0.3g60l2z2/patterns_percentChange.rds
data/gbm_spm_example_multi/spm/sup0.3g60l2z2/patterns_rateChange.rds
data/gbm_spm_example_multi/spm/sup0.4g60l2z2/featureVectors_percentChange.rds
data/gbm_spm_example_multi/spm/sup0.4g60l2z2/featureVectors_rateChange.rds
data/gbm_spm_example_multi/spm/sup0.4g60l2z2/patterns_percentChange.rds
data/gbm_spm_example_multi/spm/sup0.4g60l2z2/patterns_rateChange.rds
data/gbm_spm_example_multi/spm/transactions_percentChange.txt
data/gbm_spm_example_multi/spm/transactions_rateChange.txt
data/gbm_spm_example_multi/spm_logs/g60l2z2_percentChange.log
data/gbm_spm_example_multi/spm_logs/g60l2z2_rateChange.log
data/patterns_ratechange_sup0.4g60l2z2.RData
examples/example_final_model.R
examples/example_logit_spm.R
examples/example_logit_vol.R
examples/example_spm.R
man/aucs.Rd
man/cleanData.Rd
man/createEventNames.Rd
man/createTransactions.Rd
man/discretizeKPS.Rd
man/discretizeTumVols.Rd
man/findPatternDays.Rd
man/getAge.Rd
man/getAgeDecade.Rd
man/getCV.Rd
man/getChemoOverlapEvents.Rd
man/getData.Rd
man/getFeatureVectors.Rd
man/getFit.Rd
man/getLaterality.Rd
man/getLocation.Rd
man/getModelStruct.Rd
man/getPatIDs.Rd
man/getPerformanceNames.Rd
man/getROC_PR.Rd
man/getSeqPatterns.Rd
man/getTestResults.Rd
man/getTrainResults.Rd
man/getTrainTestPartition.Rd
man/getTrainingFolds.Rd
man/getTumorLocation.Rd
man/getTumorNames.Rd
man/getVolTypeName.Rd
man/plotMultiROC.Rd
man/plotROC.Rd
man/prepDemographics.Rd
man/prepLaterality.Rd
man/prepLocation.Rd
man/prepLogitData.Rd
man/prepSurvivalLabels.Rd
man/prepTumorVol.Rd
man/removeData.Rd
man/removePreRadiation.Rd
man/removeVisits.Rd
man/resetEventIDsToDays.Rd
man/retrainLogit.Rd
man/runCV.Rd
man/runSPM.Rd
man/selectROCThreshold.Rd
man/setContinDiscrete.Rd
man/setDataCols.Rd
man/setPercentChange.Rd
man/vectorizePatterns.Rd
paper/descriptiveStatsForDataset.R
paper/finalModel_retrain.R
paper/logit/run_logit.sh
paper/logit/run_logits_spm.R
paper/logit/run_logits_vol.R
paper/plotTimelines.R
paper/renameCoefs.R
paper/results_analysis/comparePerformance.R
paper/results_analysis/getCV_logit_spm.R
paper/results_analysis/getCV_logit_vol.R
paper/spm/run_spm.R
paper/spm/run_spm.sh
paper/spm/run_spm_all.sh
paper/stats_test/getROCstats.R
paper/stats_test/univariate.R
paper/volThresholding/volThreshold_prediction.R
vignettes/generate_features.Rmd
vignettes/generate_features.html
vignettes/generate_features.pdf
vignettes/model_selection.Rmd
vignettes/model_selection.html
vignettes/model_selection.pdf
vignettes/survival_prediction.Rmd
vignettes/survival_prediction.html
vignettes/survival_prediction.pdf
