Reverse Dependencies of python-libsbml

The following projects have a declared dependency on python-libsbml:

• apricopt — A library for simulation-based parameter optimization
• apricopt-synthesis — A python library
• AutoReduce — Python based automated model reduction tools for SBML models
• biocrnpyler — A chemical reaction network compiler for generating large biological circuit models
• biomodels-qc — Tools for quality controlling the BioModels database
• BioSANS2020 — Symbolic and Numeric Software for Systems Biology
• bioscrape — Biological Stochastic Simulation of Single Cell Reactions and Parameter Estimation
• biosimulator-processes — Core implementations of process-bigraph.composite.Process aligning with BioSimulators simulator tools.
• biosimulators-cbmpy — BioSimulators-compliant command-line interface to the CBMPy simulation program <http://cbmpy.sourceforge.net/>.
• biosimulators-cobrapy — BioSimulators-compliant command-line interface to the COBRApy simulation program <https://opencobra.github.io/cobrapy/>.
• biosimulators-copasi — BioSimulators-compliant command-line interface to the COPASI simulation program <http://copasi.org>.
• biosimulators-gillespy2 — BioSimulators-compliant command-line interface to the GillesPy2 simulation program.
• biosimulators-processes — Core implementations of process-bigraph.composite.Process aligning with BioSimulators simulator tools.
• biosimulators-utils — description
• brs-libs — 'libraries for rptools'
• caspometabolism — package generating an sbml qual with support from a sbml qual of reference and caspo network output
• cbmpy — CBMPy: https://systemsbioinformatics.github.io/cbmpy/ is a platform for constraint based modelling. It implements popular FBA analyses, model editing and supports the latest SBML3FBC standards.
• cobra — COBRApy is a package for constraint-based modeling of metabolic networks.
• combine-notebooks — combine_notebooks - COMBINE jupyter notebooks in python.
• contrabass — Constraint-based model vulnerabilities analysis
• controlSBML — Control analysis of SBML models
• coyote-gui — Extensible visualization and editing tool for reaction networks.
• crnt4sbml — CRNT4SBML is an easily installable Python based package available on MacOS and Windows. CRNT4SBML is concentrated on providing a simple workflow for the testing of core CRNT methods directed at detecting bistability in cell signaling pathways endowed with mass action kinetics.
• drawsbml — Draw Signalling Pathways (SBML) using graphviz
• ecmtool — Calculates elementary conversion modes (Urbanczik & Wagner, 2005) of metabolic networks.
• findCPcore — findCP core package
• framed — framed - metabolic modeling for python
• gsmodutils — Utilities for the management and testing of genome scale models in a cross platform, open manner.
• influx-si — Metabolic flux and concentration estimation based on stable isotope labeling
• kb-analysis — H1 human embryonic stem cells (hESCs) Data Analysis
• kegg2bipartitegraph — Reconstruct metabolic bipartite graph using KEGG
• metabolike — Build graph database from BRENDA and BioCyc for studying reprogrammed metabolisms.
• metevolsim — MetEvolSim (Metabolome Evolution Simulator) Python Package
• minedatabase — Metabolic In silico Network Expansions
• mobspy — A Query-Based Language for Chemical Reaction Networks
• modelbase — A package to build metabolic models
• modelbase2 — A package to build metabolic models
• modelspec — A common JSON/YAML based format for compact model specification
• moped — Stoichiometric metabolic modelling
• netplotlib — netplotlib: A simple package for visualizing reaction network models
• networkinfotranslator — Visualize the network of SBML models
• obj-tables — Tools for creating and reusing high-quality spreadsheets
• onemodel — OneModel: an open-source SBML modeling tool
• padmet — The PADMet package allows conciliating genomics and metabolic network information used to produce a genome-scale constraint-based metabolic model within a database that traces all the reconstruction process steps. It allows representing the metabolic model in the form of a Wiki containing all the used/traced information. Other standard outputs are made available with the package.
• PAModelpy — Python framework for building and analysing protein allocation models
• pbalancing — Parameter balancing of metabolic models in systems biology
• petab — Parameter estimation tabular data
• petab-MS — Parameter estimation tabular data for multi-scale models
• PolyRound — A python package for rounding polytopes.
• py-cfba — `py_cFBA` is a Python toolbox designed for constraint-based flux balance analysis of metabolic networks.
• pycomo — PyCoMo is a software package for generating and analysing compartmentalized community metabolic models
• PyEnzyme — Handling of EnzymeML files
• pypesto — python-based Parameter EStimation TOolbox
• pyrkviewer — COYOTE: An Extensible Python Based Reaction Editor and Viewer.
• PySCeS — The Python Simulator for Cellular Systems - simulation and analysis tools for modelling biological systems
• python-enzymeml — Library for reading / writing Enzyme ML documents
• ratesb-python — rate law analysis for systems biology
• rbapy — Package for automated generation of bacterial Resource Balance Analysis (RBA) models and simulation of RBA models
• reconstructor — COBRApy Compatible Genome Scale Metabolic Network Reconstruction Tool: Reconstructor
• reframed — metabolic modeling package
• rpa-finder — A python package to find robust perfect adaptation of chemical reaction networks.
• sb2l — sb2l Translates the biological models written in SBML into LaTeX code to be compiled and read by human eye
• sbcoyote — SBcoyote: An Extensible Python Based Reaction Editor and Viewer.
• SBMate — Annotation quality metrics calculator (coverage, consistency, specificity).
• sbml2dae — A customizable SBML to Matlab parser
• sbml2hyb — sbml2hyb is a Pyton tool for SBML compatible hybrid modelling.
• sbml2julia — Optimization tool based on ODE discretisation.
• SBMLDiagrams — Visualize, edit and write SBML files.
• sbmlplot — Visualize the network of SBML models
• sbmlsh — SBML-shorthand conversion tools
• sbmltoodepy — A package that creates a python implementation of an SBML model.
• SBOannotator — SBOannotator: A Python tool for the automated assignment of Systems Biology Ontology terms
• signalpathwaysimulator — A signal pathway simulator package for SBML-based models.
• SimBio — Simulation of Biological Systems
• smgenerator — Synthetic Models of biological systems Generator
• sndg-bio — My bioinformatic scripts
• subsbml — SBML subsystem interaction modeling toolbox in Python
• TASMANIAN-DEVIL — TASMANIAN DEVIL: a software package for classifying gene activity from omics data sets, simplifying metabolic networks, and visualizing the estimated phenotypic fluxes of nutrients
• tellurium — Tellurium: An biological modeling environment for Python
• vcell-cli-utils — Python utility package for VCell CLI Java App
• yaml2sbml — A small package to convert ODEs specified in a YAML file to SBML/PEtab