BOFdat: Generating biomass objective functions for genome-scale metabolic models from experimental data
Fig 1
The three-step workflow for generating biomass objective functions from experimental data with BOFdat.
Each step is presented in a rectangular frame in which input, and output files are shown using green or grey boxes, respectively. The modular implementation of BOFdat allows performing each step sequentially or independently, i.e. Step 3 can be used by itself to improve the gene essentiality prediction of an existing BOF. When the sequence of the workflow is observed, the output biomass function from Step 1 and 2 is the input for the subsequent step. Following the light arrows leads from the input to the output of each Step. The thicker arrows present the normal workflow for BOFdat leading to the final output of Step 3.