addReact2StoM | adds a user defined reaction to stoichiometric matrix |
attachMetAbbre | Attaches abbreviation prefix "M_" for the metabolite identifiers |
attachReactAbbre | Attaches abbreviation prefix "R_" for the reaction identifiers |
createBiggModel | createBiggModel |
E.coli_iAF1260 | Ecoli dataset with ORFs and thermodynamic information |
E.coli_iJR904 | Ecoli genome-scale model |
getAdjMfromStoM | getAdjMfromStoM |
getEdgeWidths | getEdgeWidths |
getFluxGraph | Gets graphical representation of a flux distribution |
getRates | Get Optimized Rates |
getSMfromModel | Get stochiometric matrix from the model file |
getStoichiometricMatrix | Get entire stoichiometric matrix from the metabolic reconstruction for a specific organism exported in SBML format |
Glycolysis | Metabolic reconstruction of Glycolysis pathway |
gnel | Example graphnel object of Glycolysis pathway |
H.pylori_ilT341 | H.pylori in silico genome-scale characterization of single and double deletion mutants |
H.sapiens_Recon_1 | Human metabolic reconstruction |
M.barkeri_iAF692 | Metabolic reconstruction of M.barkeri |
model2hyperdraw | Draws a hypergraph representation from a model file |
possibleExternals | possibleExternals |
pruneBiggModel | pruneBiggModel |
rmvReactFromStoM | removes a reaction from the stoichiometric matrix |
S.aureus_iSB619 | Metabolic reconstruction of S.aureus |
S.cerevisiae_iND750 | Metabolic reconstruction of S.cerevisiae |