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).

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

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

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