title: R package PRIMsrc: Bump Hunting by Patient Rule Induction Method for Survival, Regression and Classification.
abstract: PRIMsrc is a novel implementation of a non-parametric bump hunting procedure, based on the Patient Rule Induction Method (PRIM), offering a unified treatment of outcome variables, including censored time-to-event (Survival), continuous (Regression) and discrete (Classification) responses. To fit the model, it uses a recursive peeling procedure with specific peeling criteria and stopping rules depending on the response. To validate the model, it provides an objective function based on prediction-error or other specific statistic, as well as two alternative cross-validation techniques, adapted to the task of decision-rule making and estimation in the three types of settings. PRIMsrc comes as an open source R package, including at this point: (i) a main function for fitting a Survival Bump Hunting model with various options allowing cross-validated model selection to control model size (#covariates) and model complexity (#peeling steps) and generation of cross-validated end-point estimates; (ii) parallel computing; (iii) various S3-generic and specific plotting functions for data visualization, diagnostic, prediction, summary and display of results. It is available on CRAN and GitHub.
authors.affiliation: Division of Bioinformatics, Center for Proteomics and Bioinformatics, Case Western Reserve University. Cleveland, OH 44106, USA.
authors.forename: Jean-Eudes
authors.initials: JE
authors.lastname: Dazard
authors.affiliation: Division of Bioinformatics, Center for Proteomics and Bioinformatics, Case Western Reserve University. Cleveland, OH 44106, USA.
authors.forename: Michael
authors.initials: M
authors.lastname: Choe
authors.affiliation: Department of Biostatistics, School of Public Health, University of Washington, Seattle, WA 98195, USA; Public Health Sciences, Fred Hutchinson Cancer Research Center, Seattle, WA 98109.
authors.forename: Michael
authors.initials: M
authors.lastname: LeBlanc
authors.affiliation: Division of Biostatistics, Dept. of Epidemiology and Public Health, The University of Miami. Miami, FL 33136, USA.
authors.forename: J Sunil
authors.initials: JS
authors.lastname: Rao
keywords: Bump Hunting; Cross-Validation; Non-Parametric Methods; Parallel Programming; R Package; Rule-Induction Methods