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5 stars written in Java
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VarSim: A high-fidelity simulation validation framework for high-throughput genome sequencing with cancer applications

Java 90 31 Updated Oct 3, 2024

A genome alignment and visualization system

Java 31 7 Updated Nov 15, 2020

ModelPolisher accesses the BiGG Models knowledgebase to annotate SBML models.

Java 23 8 Updated Jan 28, 2025

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.

Java 20 11 Updated Jun 26, 2023

A Java/JNR based FUSE virtual file system client to provide access to authorized EGA files via the EGA Data REST API (v3)

Java 6 7 Updated Jan 9, 2023