BiGGR-package |
Creates an interface to the BiGG database, provides a framework for simulation and produces flux graphs |
BiGGR |
Creates an interface to the BiGG database, provides a framework for simulation and produces flux graphs |
buildSBMLFromBiGG |
Build an SBML model from a given reactions file obtained from the BiGG database |
buildSBMLFromGenes |
Build an SBML model for specific genes in a given database |
buildSBMLFromPathways |
Build an SBML model for specific pathway(s) in a given database |
buildSBMLFromReactionIDs |
Build an SBML model for specific reactions in a given database |
createLIMFromBiGG |
Create a LIM model object from a BiGG database file |
createLIMFromSBML |
Create a LIM model object from an SBML file |
E.coli_iAF1260 |
Ecoli dataset with ORFs and thermodynamic information |
E.coli_iJR904 |
Ecoli genome-scale model |
E.coli_textbook |
Ecoli dataset from the BiGG database |
extractGeneAssociations |
Extract informations on genes from a given database |
extractPathways |
Extract all pathways from given database |
getPathwaysForSBML |
Extract all pathways from a database that are relevant for a given SBML model |
getRates |
Get Optimized Rates |
Glycolysis |
Metabolic reconstruction of Glycolysis pathway |
H.pylori_ilT341 |
H.pylori in silico genome-scale characterization of single and double deletion mutants |
H.sapiens_Recon_1 |
Reconstruction of human metabolism from the BiGG database |
lying.tunell.data |
Dataset of in vivo cerebral metabolite uptake and release rates in healthy humans (old subjects) |
M.barkeri_iAF692 |
Metabolic reconstruction of M.barkeri from the BiGG database |
M.tuberculosis_iNJ661 |
Metabolic reconstruction of M.tuberculosis from the BiGG database |
P.putida_iJN746 |
Metabolic reconstruction of P.putida from the BiGG database |
Recon2 |
Human metabolic reconstruction Recon2 |
S.aureus_iSB619 |
Metabolic reconstruction of S.aureus from the BiGG database |
S.cerevisiae_iND750 |
Metabolic reconstruction of S.cerevisiae from the BiGG database |
sampleFluxEnsemble |
Sample a posterior ensemble of feasible flux configurations within the precision limits of given fluxes. |
sbml2hyperdraw |
Returns a graph representation of an SBML model |