📖🔬☕ BioJava is an open-source project dedicated to providing a Java library for processing biological data.

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…

ModelPolisher accesses the BiGG Models knowledgebase to annotate SBML models.

A Java-based software for visualizing and translating the KEGG PATHWAY database. Conversion of KGML files into BioPAX, SBML, GraphML, GML, and various other formats.

A standalone program that reads files created with the graphical network editor Escher and converts them to files in community standard formats.

Cross platform highly-extensible JavaFx based application which provides functions for reading, writing, manipulating, and validating SBML files.

InSilico

Translation between CellDesigner-flavoured SBML and SBGN-ML

Translation between GraphML (yED) and SBGN-ML

A collection of tools for working with models in SBML format

Java library to read/write/create/manipulate/... CombineArchives

Provides a unified and flexible Java interface for mathematical optimization using multiple solver backends.

Easily usable JavaFx-based inSilico module for dynamic Systems Biology Markup Language (SBML) model simulation visualization. Provides an intuitive Graphical User Interface for dynamic processing b…

FERN (Framework for Evaluation of Reaction Networks) is an extensible and comprehensive framework for efficient simulations and analysis of chemical reaction networks written in Java.

InSilico

This repository will contain all the programs I will write throughout the Numerical Analysis course