Before revision:  This protocol can be adapted for the generation and analysis of a constraint-based model in a wide variety of molecular systems biology scenarios  .
After revision:  This protocol can be adapted for the generation and analysis of a constraint-based model in a wide variety of molecular systems biology scenarios . This protocol is an update to the COBRA Toolbox 1.0 and 2.0. The COBRA Toolbox 3.0 provides an unparalleled depth of constraint-based reconstruction and analysis methods .