caspo : a toolbox for automated reasoning on the response of logical signaling networks families Article - 2017

Santiago Videla, Julio Saez-Rodriguez, Carito Guziolowski, Anne Siegel

Santiago Videla, Julio Saez-Rodriguez, Carito Guziolowski, Anne Siegel, « caspo : a toolbox for automated reasoning on the response of logical signaling networks families  », Bioinformatics, 2017. ISSN 1367-4803

Abstract

Summary : We introduce the caspo toolbox, a python package implementing a workflow for rea- soning on logical networks families. Our software allows researchers to (i) learn a family of logical networks derived from a given topology and explaining the experimental response to various perturbations ; (ii) classify all logical networks in a given family by their input-output behaviors ; (iii) predict the response of the system to every possible perturbation based on the ensemble of predictions ; (iv) design new experimental perturbations to discriminate among a family of logical networks ; and (v) control a family of logical networks by finding all interventions strategies forcing a set of targets into a desired steady state.Availability and Implementation : caspo is open-source software distributed under the GPLv3 license. Source code is publicly hosted at http://github.com/bioasp/caspo.

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