additionCost: Calculate the cost of addition of a stoichiometric reaction...
In g2f: Find and Fill Gaps in Metabolic Networks

Description Usage Arguments Author(s) Examples

For a given set of stoichiometric reactions this function calculates the cost of addition in a reference metabolic network. The cost is calculated by dividing the amount of non included metabolites in the reference metabolic network over the total number of metabolites involved in the reaction.

1	additionCost(reaction, reference)

reaction

A stoichiometric reaction with the following format:

"H2O[c] + Urea-1-carboxylate[c] <=> 2 CO2[c] + 2 NH3[c]"

Where arrows and plus signs are surrounded by a "space character". It is also expected that stoichiometry coefficients are surrounded by spaces, (nothe the "2" before the CO2[c] or the NH3[c]). It also expects arrows to be in the form "=>" or "<=>". Meaning that arrows like "==>", "<==>", "-->" or "->" will not be parsed and will lead to errors.

reference

A set of stoichiometric reaction with the same format of reaction.

Daniel Camilo Osorio <dcosorioh@unal.edu.co>

## Not run: 
# Downloading stoichiometric reactions of reference
hsa <- getReference(organism = "hsa")

# Calculating cost
additionCost(reaction = "alpha-Amino acid + H2O + NAD+ <=> 2-Oxo acid + Ammonia + NADH + H+",
             reference = hsa$reaction)

## End(Not run)