ecoli_core
A small E. coli model, created from a number of sources.
iJO1366
A full size E. coli model.
reactiontbl_to_expanded()
Parse a reaction table to an intermediate, long format
expanded_to_reactiontbl()
Convert intermediate expanded format back to a reaction table
expanded_to_ROI()
Parse a long format metabolic model to an ROI model
decompose_metabolites()
Decompose a metabolite table into the metabolite stub itself and the compartment it is in
recompose_metabolites()
Merge metabolite stub and compartment to form an id
gene_associate()
Apply gene expressions to reaction table
gene_eval()
Function to estimate the expression levels of gene sets
find_fluxes_df()
Given a metabolic model as a data frame, return a new data frame with fluxes
find_flux_variability_df()
Given a metabolic model as a data frame, return a new data frame with fluxes and variability