GEMtractor: Extracting Views into Genome-scale Metabolic Models

ABSTRACT Summary Computational metabolic models typically encode for graphs of species, reactions, and enzymes. Comparing genome-scale models through topological analysis of multipartite graphs is challenging. However, in many practical cases it is not necessary to compare the full networks. The GEMtractor is a web-based tool to trim models encoded in SBML. It can be used to extract subnetworks, for example focusing on reaction- and enzyme-centric views into the model. Availability and Implementation The GEMtractor is licensed under the terms of GPLv3 and developed at github.com/binfalse/GEMtractor – a public version is available at sbi.uni-rostock.de/gemtractor . Contact [email protected] and [email protected]