sybilccFBA: Cost Constrained FLux Balance Analysis: MetabOlic Modeling with ENzyme kineTics (MOMENT)

An implementation of a cost constrained flux balance analysis technique (i.e. MetabOlic Modeling with ENzyme kineTics (MOMENT)). MOMENT uses enzyme kinetic data and enzyme molecular weights to constrain flux balance analysis(FBA) and it is described in Adadi, R., Volkmer, B., Milo, R., Heinemann, M., & Shlomi, T. (2012). Prediction of Microbial Growth Rate versus Biomass Yield by a Metabolic Network with Kinetic Parameters, 8(7). doi:10.1371/journal.pcbi.1002575. This package also implements an improvement of MOMENT that considers multi-functional enzymes. FBA is a mathematical technique to find fluxes in metabolic models at steady state. It is described in Orth, J.D., Thiele, I. and Palsson, B.O. What is flux balance analysis? Nat. Biotech. 28, 245-248(2010).

Install the latest version of this package by entering the following in R:
install.packages("sybilccFBA")
AuthorAbdelmoneim Amer Desouki [aut, cre]
Date of publication2015-04-02 17:52:06
MaintainerAbdelmoneim Amer Desouki <abdelmoneim.amer@uni-duesseldorf.de>
LicenseGPL-3
Version2.0.0

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Files

inst
inst/extdata
inst/extdata/mat.csv
inst/extdata/mets.csv
inst/extdata/aa.txt
inst/extdata/cbnds.csv
inst/extdata/ALL_PTT.TSV
inst/extdata/rxns.csv
inst/extdata/rbnds.csv
inst/extdata/NC_000913.faa
inst/extdata/test2.ptt
NAMESPACE
NEWS
data
data/yst_kcat.RData
data/iAF1260.RData
data/kcat.RData
data/yst_mw.RData
data/iJO1366.RData
data/iMM904.RData
data/mw.RData
R
R/cfba_moment.R R/calc_MW.R R/addGlcTrns.R R/readmodel.R R/getRevFlux.R R/cfba_moment_pw.R R/cfba_moment_mr.R
MD5
DESCRIPTION
man
man/yst_mw.Rd man/mw.Rd man/readmodel.Rd man/kcat.Rd man/cfba_moment_mr.Rd man/sybilccFBA-package.Rd man/getRevFlux.Rd man/yst_kcat.Rd man/calc_MW.Rd man/cfba_moment_pw.Rd man/cfba_moment.Rd man/iJO1366.Rd man/iAF1260.Rd man/iMM904.Rd man/addGlcTrns.Rd

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