mlr3proba 0.7.0

mlr3proba 0.7.0

• Add mlr3pipelines to Imports, refactoring/simplify code, set minimum latest version from CRAN (0.7.0) in DESCRIPTION
• Add new reduction method, a survival => classification pipeline (via IPCW, Vock et al. 2016)
• Improved the way integrated survival scores (eg surv.graf) handles the times argument and the t_max (results are the same as before if the times argument is not used)
• Improved documentation of integrated survival scores and some pipelines (add references)
• Add experimental lifecycle badge for some pipelines and pipeops - these are currently either not supported by literature or tested enough

mlr3proba 0.6.8

• Rcpp code optimizations
• Fixed ERV scoring to comply with mlr3 dev version (no bugs before)
• Skipping survtoregr pipelines due to bugs (to be refactored in the future)
• Deprecate crank to distr composition in distrcompose pipeop (only from lp => distr works now)
• Add get_mortality() function (from survivalmodels::surv_to_risk()
• Add Rcpp function assert_surv_matrix()
• Update and simplify crankcompose pipeop and respective pipeline (no response is created anymore)
• Add responsecompositor pipeline with rmst and median

mlr3proba 0.6.6

• Some fixes from v0.6.5

mlr3proba 0.6.5

• Compatibility with [email protected]
• t_max updates and fixes on surv.cindex and surv.ibrier metrics
• New methods to TaskSurv
• coxed task generator
• Lots of refactoring
• Support for discrete-time survival analysis

mlr3proba 0.6.0

• Optimized surv.logloss and calib_alpha measures (bypassing distr6)
• Update/refine all measure docs (naming conventions from upcoming scoring rules paper) + doc templates
• fix very rare bugs in calib_alpha, surv.logloss and surv.graf (version with proper = FALSE)

mlr3proba 0.5.7

What's Changed

• Add breslow function for estimating the cumulative baseline hazard of proportional hazard models
• Add PipeOpBreslow to wrap a survival learner and generate distr predictions from lp predictions
• Add option breslow estimator option in distrcompositor
• Add extend_quantile to autoplot.PredictionSurv for type = "dcalib", which imputes NAs with the maximum observed survival time
• Fixes default in autoplot.PredictionSurv, now "calib"
• Update msr("surv.dcalib") default for truncate to Inf
• Add $reverse() method to TaskSurv, which returns the same task but with 1-status.
• Add reverse parameter to TaskSurv$kaplan() method, which calculates Kaplan-Meier on the censoring distribution of the task (1-status).
• Fix bottlenecks in Dcalib and RCLL

mlr3proba 0.5.3

What's Changed

• remove distr prediction from rpart survival learner by @bblodfon in #298
• generate_tasks.LearnerSurv respects feature types by @sebffischer in #249
• Update tic templates [ci-skip] by @pat-s in #300
• fix divide by zero bug in surv.cindex by @RaphaelS1 in #302
• ci: new workflows by @be-marc in #303
• fix ipcw bug by @RaphaelS1 in #304
• refactor: compability to mlr3viz 0.6.0 by @be-marc in #305
• Fix single prediction by @RaphaelS1 in #308
• fix na error in rcll by @RaphaelS1 in #310
• fix rcll and Uno's AUC bugs by @bblodfon in #314
• 0.5.0 by @RaphaelS1 in #316
• add regr.logloss by @RaphaelS1 in #317
• add probregr plot by @RaphaelS1 in #318
• fix rcll bug by @RaphaelS1 in #319
• fix test by @bblodfon in #320
• RCLL bug (1 observation in test set) by @bblodfon in #322
• Measures updates (RCLL fix range, change field values when ERV = TRUE) by @bblodfon in #324
• Optionally skip tests if 'rpart' unavailable by @MichaelChirico in #329
• Support for Arrdist prediction types by @bblodfon in #330
• Support arrdist by @RaphaelS1 in #331

New Contributors

• @MichaelChirico made their first contribution in #329

Full Changelog: v0.4.13...v0.5.3

mlr3proba 0.4.13

What's Changed

• fix AUCs by @RaphaelS1 in #268
• bugfix logloss by @RaphaelS1 in #272
• Fix Rcpp errors by @mllg in #270
• Prepare release by @mllg in #274
• add ERV by @RaphaelS1 in #276
• fix transpose bug by @RaphaelS1 in #277
• Closes survavg doesn't correctly output mixed distribution? #278 by @RaphaelS1 in #280
• chore: compatibility to mlr3 13.5 by @be-marc in #286
• bugfix by @RaphaelS1 in #289
• refactor: move plot functions from mlr3viz by @be-marc in #282
• Update tic templates [ci-skip] by @pat-s in #292
• Replace call to task() with S3 call + updated docs by @mllg in #293
• update doc by @bblodfon in #294

New Contributors

• @be-marc made their first contribution in #286
• @bblodfon made their first contribution in #294

Full Changelog: v0.4.7...v0.4.13

mlr3proba 0.4.7

mlr3proba 0.4.7

• Add right-censored log loss
• Fix bug in {rpart} where model was being discarded when set to be kept. Parameter model now called keep_model.

mlr3proba 0.4.6

• Patch for upstream breakages
• Add TaskSurv$kaplan method
• {survivalmodels} now imported (previously suggested)

mlr3proba 0.4.5

• Improved reduction from survival matrix predictions to ranking predictions
• Fixed cindex bug when all predictions equal
• Fix for valgrind

mlr3proba 0.4.4

• Minor change to how distributions are created to better support improper distributions
• Fixed bug in simsurv task that made it impossible to predict the target