RANKS: A flexible tool for node label ranking and classification in biological networks. Valentini, G., Armano, G., Frasca, M., Lin, J., Mesiti, M., & Re, M. Bioinformatics, 32(18):2872-2874, 2016. doi abstract bibtex RANKS is a flexible software package that can be easily applied to any bioinformatics task formalisable as ranking of nodes with respect to a property given as a label, such as automated protein function prediction, gene disease prioritization and drug repositioning. To this end RANKS provides an efficient and easy-to-use implementation of kernelized score functions, a semi-supervised algorithmic scheme embedding both local and global learning strategies for the analysis of biomolecular networks. To facilitate comparative assessment, baseline network-based methods, e.g. label propagation and random walk algorithms, have also been implementedAvailability and implementation: The package is available from CRAN: https://cran.r-project.org/ The package is written in R, except for the most computationally intensive functionalities which are implemented in C. CONTACT valentini@di.unimi.it SUPPLEMENTARY INFORMATION: Supplementary Information are available at Bioinformatics online.
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title = {RANKS: A flexible tool for node label ranking and classification in biological networks},
type = {article},
year = {2016},
pages = {2872-2874},
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abstract = {RANKS is a flexible software package that can be easily applied to any bioinformatics task formalisable as ranking of nodes with respect to a property given as a label, such as automated protein function prediction, gene disease prioritization and drug repositioning. To this end RANKS provides an efficient and easy-to-use implementation of kernelized score functions, a semi-supervised algorithmic scheme embedding both local and global learning strategies for the analysis of biomolecular networks. To facilitate comparative assessment, baseline network-based methods, e.g. label propagation and random walk algorithms, have also been implementedAvailability and implementation: The package is available from CRAN: https://cran.r-project.org/ The package is written in R, except for the most computationally intensive functionalities which are implemented in C. CONTACT valentini@di.unimi.it SUPPLEMENTARY INFORMATION: Supplementary Information are available at Bioinformatics online.},
bibtype = {article},
author = {Valentini, Giorgio and Armano, Giuliano and Frasca, Marco and Lin, Jianyi and Mesiti, Marco and Re, Matteo},
doi = {10.1093/bioinformatics/btw235},
journal = {Bioinformatics},
number = {18}
}
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