Pinned Repositories
Bifurcation-Analysis
This code is written in Maple and help us to analyze the changing behavior of system as one, two parameters are being varied.
BOFdat
Generate biomass objective function stoichiometric coefficients for genome-scale models from experimental data
cobrapy
COBRApy is a package for constraint-based modeling of biological networks
dfg
A LaTeX template for a basic DFG (Deutsche Forschungsgemeinschaft, German Research Foundation) grant proposal.
DPM-SAU-in-HSA-nose
This repository introduces the codes applied to the nasal microbial community of the latest available curated GEMs of D. pigrum and S. aureus.
Elements-of-Style-Reproducible-Workflow-Creation-Maintenance-Tutorial
Integrated_Bioinformatics
jsbml
JSBML is a community-driven project to create a free, open-source, pure Java™ library for reading, writing, and manipulating SBML files (the Systems Biology Markup Language) and data streams. It is an alternative to the mixed Java/native code-based interface provided in libSBML.
MassChargeCuration
Python module to automatically curate the mass and charge assignments for metabolites in a metabolic model.
ModelEditingTools
A collection of tools for working with models in SBML format
Biomathsys's Repositories
Biomathsys/MassChargeCuration
Python module to automatically curate the mass and charge assignments for metabolites in a metabolic model.
Biomathsys/Bifurcation-Analysis
This code is written in Maple and help us to analyze the changing behavior of system as one, two parameters are being varied.
Biomathsys/BOFdat
Generate biomass objective function stoichiometric coefficients for genome-scale models from experimental data
Biomathsys/cobrapy
COBRApy is a package for constraint-based modeling of biological networks
Biomathsys/dfg
A LaTeX template for a basic DFG (Deutsche Forschungsgemeinschaft, German Research Foundation) grant proposal.
Biomathsys/DPM-SAU-in-HSA-nose
This repository introduces the codes applied to the nasal microbial community of the latest available curated GEMs of D. pigrum and S. aureus.
Biomathsys/Elements-of-Style-Reproducible-Workflow-Creation-Maintenance-Tutorial
Biomathsys/Integrated_Bioinformatics
Biomathsys/jsbml
JSBML is a community-driven project to create a free, open-source, pure Java™ library for reading, writing, and manipulating SBML files (the Systems Biology Markup Language) and data streams. It is an alternative to the mixed Java/native code-based interface provided in libSBML.
Biomathsys/ModelEditingTools
A collection of tools for working with models in SBML format
Biomathsys/ncmw
A metabolic modeling workflow for communities of organisms in an nasal medium.
Biomathsys/pymCADRE
pymCADRE enables the reconstruction of tissue-specific metabolic models in Python using transcriptomic data and information of the network topology.
Biomathsys/Python_Project_summerschool2018
Biomathsys/ModelPolisher
ModelPolisher accesses the BiGG Models knowledgebase to annotate SBML models.
Biomathsys/refinegems
refineGEMs is a python package inteded to help with the curation of genome-scale metabolic models (GEMS).
Biomathsys/SPECIMEN
Automated pipeline for strain-specific metabolic modeling based on a high-quality template model.