Rgtsp: a generalized top scoring pairs package for class prediction.
- Popovici V Bioinformatics Core Facility, Swiss Institute of Bioinformatics, CH-1015 Lausanne, Switzerland. vlad.popovici@isb-sib.ch
- Budinská E
- Delorenzi M
- 2011-04-21
Published in:
- Bioinformatics (Oxford, England). - 2011
English
SUMMARY
A top scoring pair (TSP) classifier consists of a pair of variables whose relative ordering can be used for accurately predicting the class label of a sample. This classification rule has the advantage of being easily interpretable and more robust against technical variations in data, as those due to different microarray platforms. Here we describe a parallel implementation of this classifier which significantly reduces the training time, and a number of extensions, including a multi-class approach, which has the potential of improving the classification performance.
AVAILABILITY AND IMPLEMENTATION
Full C++ source code and R package Rgtsp are freely available from http://lausanne.isb-sib.ch/~vpopovic/research/. The implementation relies on existing OpenMP libraries.
A top scoring pair (TSP) classifier consists of a pair of variables whose relative ordering can be used for accurately predicting the class label of a sample. This classification rule has the advantage of being easily interpretable and more robust against technical variations in data, as those due to different microarray platforms. Here we describe a parallel implementation of this classifier which significantly reduces the training time, and a number of extensions, including a multi-class approach, which has the potential of improving the classification performance.
AVAILABILITY AND IMPLEMENTATION
Full C++ source code and R package Rgtsp are freely available from http://lausanne.isb-sib.ch/~vpopovic/research/. The implementation relies on existing OpenMP libraries.
- Language
-
- English
- Open access status
- bronze
- Identifiers
-
- DOI 10.1093/bioinformatics/btr233
- PMID 21505033
- Persistent URL
- https://sonar.ch/global/documents/278904
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