Infer metabolic directions from moment differences of mass-weighted intensity distributions

Agent-based metabolic modelling of microbial communities in time and continuous µ-meter-scale space

A RMosek optimization interface for the Sybil package

An R package to find the gaps in metabolic networks, and fill it from the stoichiometric reactions of a reference metabolic reconstruction using a weighting function. Also include the option to download all the set of gene-associated stoichiometric reactions for a specific organism from the KEGG database.

A study on multi-omic oscillations in Escherichia coli metabolic networks. Journal paper.

An R package to incorporate in a continuous way the gene-expression data as FBA flux boundaries in a metabolic model. Also, functions to calculate and plot the differences between model fluxes in different metabolic scenarios was included. This is an implementation of the algorithm described by Lee et al. (2012) in DOI: 10.1186/1752-0509-6-73.