interpol an r package for preprocessing of protein sequences国际刑警组织r包预处理的蛋白质序列.pdfVIP

Heider and Hoffmann BioData Mining 2011, 4:16 /content/4/1/16 BioData Mining SHORT REPORT Open Access Interpol: An R package for preprocessing of protein sequences * Dominik Heider and Daniel Hoffmann * Correspondence: dominik. Abstract heider@uni-due.de Department of Bioinformatics, Background: Most machine learning techniques currently applied in the literature Center for Medical Biotechnology, University of Duisburg-Essen, need a fixed dimensionality of input data. However, this requirement is frequently Universitaetsstr. 2, 45141 Essen, violated by real input data, such as DNA and protein sequences, that often differ in Germany length due to insertions and deletions. It is also notable that performance in classification and regression is often improved by numerical encoding of amino acids, compared to the commonly used sparse encoding. Results: The software “Interpol” encodes amino acid sequences as numerical descriptor vectors using a database of currently 532 descriptors (mainly from AAindex), and normalizes sequences to uniform length with one of five linear or non-linear interpolation algorithms. Interpol is distributed with open source as platform independent R-package. It is typically used for preprocessing of amino acid sequences for classification or regression. Conclusions: The functionality of Interpol widens the spectrum of machine le