abcdeFBA (version 0.2)

Gene_del: Gene_del, a function to create Gene Deletion mutants

Description

Gene-protein are not one-to-one relationships due to multi-meric enzymes and iso-enzymes, Gene_del interprets the boolean rules inherent to the model and returns a mutant model when supplied with the Wild-type model and a vector of gene names to be deleted.

Usage

Gene_del(fba_object,gene_set)

Arguments

fba_object

Is a list containing the data required to perform flux balance analysis. The elements of the list are mat which is the stoichiometric matrix, dir which gives the direction of the equality constraints, obj specifies the objective function for the simu

gene_set

a character vector containing the gene names, frequently as bnums eg."b0001"

Examples

#To create a mutant model .
	#data(Ecoli_core)
	#Ec_mutant<-Gene_del(Ecoli_core,c("b0001","b0002"))
	#Ec_mutant will have reactions corresponding to the genes specified deleted. 
	#FBA_solve(Ec_mutant)