title: Minerva and minepy: a C engine for the MINE suite and its R, Python and MATLAB wrappers.
abstract: We introduce a novel implementation in ANSI C of the MINE family of algorithms for computing maximal information-based measures of dependence between two variables in large datasets, with the aim of a low memory footprint and ease of integration within bioinformatics pipelines. We provide the libraries minerva (with the R interface) and minepy for Python, MATLAB, Octave and C++. The C solution reduces the large memory requirement of the original Java implementation, has good upscaling properties and offers a native parallelization for the R interface. Low memory requirements are demonstrated on the MINE benchmarks as well as on large ( = 1340) microarray and Illumina GAII RNA-seq transcriptomics datasets.
  
  
  METHODS
  Source code and binaries are freely available for download under GPL3 licence at http://minepy.sourceforge.net for minepy and through the CRAN repository http://cran.r-project.org for the R package minerva. All software is multiplatform (MS Windows, Linux and OSX).
authors.affiliation: Fondazione Bruno Kessler, via Sommarive 18, I-38123 Povo (Trento), Italy.
authors.forename: Davide
authors.initials: D
authors.lastname: Albanese
authors.forename: Michele
authors.initials: M
authors.lastname: Filosi
authors.forename: Roberto
authors.initials: R
authors.lastname: Visintainer
authors.forename: Samantha
authors.initials: S
authors.lastname: Riccadonna
authors.forename: Giuseppe
authors.initials: G
authors.lastname: Jurman
authors.forename: Cesare
authors.initials: C
authors.lastname: Furlanello
mesh_terms: D000465:Algorithms; D019295:Computational Biology; D057225:Data Mining; D020869:Gene Expression Profiling; D054892:Metagenome; D012984:Software