Parallelized prediction error estimation for evaluation of high-dimensional models.
There is a multitude of new techniques that promise to extract predictive information in bioinformatics applications. It has been recognized that a first step for validation of the resulting model fits should rely on proper use of resampling techniques. However, this advice is frequently not followed, potential reasons being difficulty of correct implementation and computational demand. This is addressed by the R package peperr, which is designed for reliable prediction error estimation through resampling, potentially accelerated by parallel execution on a compute cluster. Its interface allows easy connection to newly developed model fitting routines. Performance evaluation of the latter is furthermore guided by diagnostic plots, which helps to detect specific problems due to high-dimensional data structures.


BACKGROUND
http://cran.r-project.org, http://www.imbi.uni-freiburg.de/parallel.


BACKGROUND
Supplementary data are available at Bioinformatics online.
Porzelius
Christine
C
Institute of Medical Biometry and Medical Informatics, University Medical Center Freiburg, 79104 Freiburg, Germany. cp@fdm.uni-freiburg.de
Binder
Harald
H
Schumacher
Martin
M
D015982:Bias; D019295:Computational Biology / Q000379:methods*; D020407:Internet; D015233:Models, Statistical; D012984:Software