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polco — Polyhedral Computations Tool
Java tool to compute extreme rays of polyhedral cones. It can also be used to enumerate vertices of polytopes, and for the dual problem, the enumeration of facets given the extreme points (aka convex hull).
efmtool — Elementary Flux Mode Tool
MATLAB/Java tool to compute elementary flux modes of metabolic networks.
Mapping Tool
Java tool which maps different nomenclatures.
Features:
- Various data sources can be parsed, including MS Excel, Text (comma/tab/... separated) etc.
- Predefined databases are supported as data source (currently KEGG and OMA Browser)
- Automatic and user-guided mapping of user data source to reference data source
- Export of mapped columns (to text or MS Excel)
Convert2Sbml / Convert2Matlab
Java tool to convert various metabolic network source files into sbml/matlab files.
Java libraries
- Fraction number, with algebraic operations
- class BigFraction extends java.lang.Number
- Supports conversion from/to all other Java number types
- Download (source & class files): big-fraction.jar
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