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A file format for exchanging computational models in systems biology
The Systems Biology Markup Language (SBML) is an XML-based description language for representing computational models in systems biology. Visit the project web site to learn more.
nexml is an xml format that represents phylogenetic data (trees, character sequence alignments, sets of OTUs, substitution models). The format is inspired by the commonly used flat-file NEXUS format, but more robust and easier to process.
Tpl makes it easy to serialize your C data using just a handful of API functions. The data is stored in its native binary form for maximum efficiency. C, Perl and XML supported. Data is portable across CPU types and OS's from Unix to Mac to Windows.
The Genomic Diversity and Phenotype Data Model (GDPDM) captures molecular and phenotypic diversity data. MySQL databases are used to implement the schema. This project develops software tools (written in Java, Perl, etc.) associated with this model.