matthiaskoenig

Matthias König (PhD. in Biophysics) leads a research group for Systems Medicine of the liver.

Humboldt UniversityBerlin

Pinned Repositories

brendapy
BRENDA parser in python
Language:Python22 4 536
cy3sbml
cy3sbml: SBML for Cytoscape 3
Language:Java14 4 3252
dfba
Encoding Dynamic Flux Balance Analysis in SBML
Language:HTML12 5 161
exsimo
Executable simulation model of the liver
Language:Python9 2 90
fbc_curation
FROG analysis in python for the reproducibility of FBC models
Language:Python8 3 854
libsbgnpy
Python library for SBGN
Language:JavaScript9 5 500
neo4sbml
Neo4j representation of SBML model components and annotations
Language:Python6 4 00
pkdb
Pharmacokinetics database
Language:Python43 5 7058
sbmlsim
sbmlsim: SBML simulation made easy
Language:HTML5 3 1324
sbmlutils
Python utilities for SBML
Language:HTML41 5 34312

matthiaskoenig's Repositories

matthiaskoenig/opentrials
OpenTrials Hackathon
Language:Python5 5 02
matthiaskoenig/cy2sbml
cy2sbml: SBML for Cytoscape 2
Language:HTML3 2 2
matthiaskoenig/glucose-model
Hepatic glucose model
Language:MATLAB1 3 3
matthiaskoenig/circadian_frequencies
Language:Jupyter Notebook
matthiaskoenig/cobrapy
COBRApy is a package for constraint-based modeling of biological networks
Language:Python
matthiaskoenig/cy2sabiork
[DEPRECATED] cy2sabiork: SABIO-RK for Cytoscape 2
Language:HTML3 0
matthiaskoenig/cy3fluxviz
Language:Java4 6
matthiaskoenig/cy3javascript
Language:Java
matthiaskoenig/cy3robundle
Minimal example including taverna robundle
Language:Java3 0
matthiaskoenig/cyREST
Core App: REST API module for Cytoscape
Language:Java1 0
matthiaskoenig/cyrest-challenge
Language:Jupyter Notebook1
matthiaskoenig/cytoscape-automation
Collection of scripts that include programmatic io and control of Cytoscape
Language:Jupyter Notebook
matthiaskoenig/d2d
a modeling environment tailored to parameter estimation in dynamical systems
Language:C++
matthiaskoenig/design-patterns-for-humans
Design Patterns for Humans™ - An ultra-simplified explanation
matthiaskoenig/flutype-task
Language:Jupyter Notebook3
matthiaskoenig/incubator-taverna-language
Mirror of Apache Taverna Language (incubating)
Language:Java3 0
matthiaskoenig/lassie-test
Language:Python3 0
matthiaskoenig/libsbgn
Libraries for the Systems Biology Graphical Notation (SBGN); Java and C++
Language:HTML
matthiaskoenig/libSEDML
SED-ML library based on libSBML
Language:C++
matthiaskoenig/litovillegas
Language:HTML3 0
matthiaskoenig/markdown-licenses
A collection of open source licenses in Markdown format. Contributions are always welcome!
matthiaskoenig/matthiaskoenig.github.io
Language:HTML
matthiaskoenig/miriampy
matthiaskoenig/modelmanager
Language:HTML
matthiaskoenig/NuML
Numerical Markup Language
Language:C++
matthiaskoenig/optlang
optlang - sympy based mathematical programming language
Language:Python
matthiaskoenig/puppet
Server automation framework and application
Language:Ruby
matthiaskoenig/SBMLDataTools
Tools for adding external data to SBML models.
Language:Java
matthiaskoenig/tellurium-sedml
Language:HTML
matthiaskoenig/zugzwang
Zugzwang (German: forced to make a move) is a new OpenGL-accelerated renderer for Cytoscape that prioritizes rapid visual feedback above all else – thus the name.
Language:Java