Fig. 1

Schematic of processes automated by ChiMera. We use automation to compile several tasks and create an organism specific model based on the genomic data. A Model creation using CarveMe pruning algorithm requires the user to provide only a protein annotation file based on the genome. B Model conversion to a stoichiometric matrix to perform flux balance analysis and gene and reaction knockouts. C Representation of pre-defined Escher maps, reactions depicted in blue were detected in the model, red ones were absent. D Users can use the Cytoscape search bar to select specific pathways