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ChangeLog
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2020-08-25 Julian Candia <[email protected]> version 1.1.2
* added mergeObj.R function to merge objects generated with different alphas.
* added option to save full lambda vs QF information; updated export function accordingly.
* added option to create the destination directory recursively.
* survival time-dependent AUC in Cox models is now calculated using the timeROC package and dependencies (before, the package survivalROC was used).
* fixes to time-dependent ROC plots.
* updated and improved man pages.
* extensive update of the vignette to report errata and to discuss parallelization, negative regression slopes, etc.
2020-06-14 Julian Candia <[email protected]> version 1.1.1
* deleted exportClasses() from NAMESPACE to address some Package Check warnings.
2019-09-19 Julian Candia <[email protected]> version 1.1.0
* added Cox regression (family="cox").
* added BreastC_Surv.RData dataset for Cox regression.
* added plots specific to Cox regression: plotKaplanMeier, plotSurvROC.
* added functionality to save the eNetXplorer object.
* fixed y-axis label of plotMeasuredVsOOB for categorical models.
* improved handling of destination directory and file names in export.R and summaryPDF.R
* updated and improved man pages.
2019-04-16 Julian Candia <[email protected]> version 1.0.2
* expanded built-in quality function options for binomial and multinomial models.
* expanded the Leukemia_miR.RData dataset to include both full and filtered datasets (to ensure data provenance and reproducibility).
* added error-catching functions, so that if an error happens, results for completed alphas are returned.
* added n_lambda_eff to deal with glmnet convergence issues (where glmnet would return solutions for a subset of lambdas).
* added suppressWarnings() call around arrows() in plotFeatureCaterpillar.R and plotFeatureCaterpillarMultinom.R
* added vignette.
* updated man pages.
* updated citation.
2018-06-10 Julian Candia <[email protected]> version 1.0.1
* added export option for p-value tables.
* added progress bar during computation of model predictions.
* updated references.
* fixed bug in plot feature heatmap code (issue with sparse pval matrix).