In Silico Fermentation has been developing freely downloadable MATLAB applications that streamline the utilization of microbial metabolic modeling methods. Our previous three applications, MediumFBA, InSilicoKO and STBRsim, already have over 400 downloads since the first release in February, 2024. Now we are pleased to announce the release of SynComSim, a free MATLAB application that enables […]
Last month, In Silico Fermentation released STBRsim version1.0, a freely downloadable MATLAB application for Stirred Tank BioReactor (STBR) simulation using genome-scale metabolic models. STBRsim is a GUI tool that generates dynamic predictions of extracellular variables including biomass, substrate and product concentrations and liquid/gas phase volumes for user-specified reactor conditions and liquid/gas feeding strategies. Based on […]
In Silico Fermentation has been developing freely downloadable MATLAB applications that facilitate the implementation of metabolic modeling methods. Our first two applicationsMediumFBA and InSilicoKO, already have over 300 downloads since their initial release in February, 2024. Now we are pleased to announce the release of STBRsim, a free MATLAB application that streamlines the development of […]
In Silico Fermentation is pleased to announce the release of InSilicoKO version 2.0, a freely downloadable MATLAB application for the computational design of knockout strains for metabolite overproduction based on genome-scale metabolic reconstructions. The GUI tool provides a simple and intuitive workflow that allows the user to generate reaction/gene knockouts that maximize the secretion of […]
Early this month, In Silico Fermentation released MediumFBA version1.0, a freely downloadable MATLAB application for genome-scale metabolic modeling. MediumFBA is a GUI tool which generates growth media that ensure monoculture growth of all strains through a simple and intuitive workflow. We are gratified that MediumFBA already has over 60 downloads. Based on initial user feedback, […]
In Silico Fermentation is pleased to announce the release of MediumFBA version1.0, a freely downloadable MATLAB application that integrates the medium design and flux balance analysis (FBA) problems to facilitate in silico metabolic analyses. MediumFBA is a GUI tool which generates growth media that ensure monoculture growth of all strains where the metabolic properties of […]
