Precisely the most detailed presentation and practical implementation of this methodology, as well as experiments in real data and comparisons with other state of the art methods is what we propose as the second chapter of this work. In particular, we present the main functionalities of optimalFlow , an R package that we have developed to facilitate the use of our methods. We have also made a package, optimalFlowData, with the data used for our experiments. Both are available as free software in gitHub and have been submitted to BioConductor.