Cost Constrained Flux Balance Analysis (ccFBA): MetabOlic Modeling with ENzyme kineTics (MOMENT)

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Documentation for package ‘sybilccFBA’ version 3.0.1

• DESCRIPTION file.
• Package NEWS.

Help Pages

sybilccFBA-package	Cost Constrained Flux Balance Analysis(ccFBA)
addGlcTrns	add Glucose Transport constraint
calc_MW	Calculate molecular weights
ccFBA	Class '"sysBiolAlg_ccFBA"'
cfba_moment	Function: cfba_moment: implement MOMENT method
cfba_moment_mr	Function: cfba_moment_mr: implement MOMENT method taking into account multifunctional enzymes
cfba_moment_pw	Function: cfba_moment_pw: implement MOMENT method
getccFBA_mat	getccFBA_mat: get ccFBA model as a constraint matrix
getGpr1iso	Choose the the smallest isoenzyme
getRevFlux	get fluxes of reversible model
iAF1260	Escherichia coli Metabolic Model iAF1260
iJO1366	Escherichia coli Metabolic Model iJO1366
iML1515	Escherichia coli Metabolic Model iML1515
iMM904	Saccharomyces cerevisiae Metabolic Model
initialize-method	Initialize Problem Object
kcat	Escherichia coli KCAT values used in MOMENT method
mw	Escherichia coli molecular weight values used in MOMENT method
mw_iML1515	SEColi metabolic genes molecular weight values used in MOMENT/ccFBA method
readmodel	read MOMENT model
simulate_EColi	Simulate Ecoli
sybilccFBA	Cost Constrained Flux Balance Analysis(ccFBA)
sysBiolAlg_ccFBA	Class '"sysBiolAlg_ccFBA"'
sysBiolAlg_ccFBA-class	Class '"sysBiolAlg_ccFBA"'
yst_kcat	Saccharomyces cerevisiae KCAT values used in MOMENT method
yst_mw	Saccharomyces cerevisiae molecular weight values used in MOMENT method