| Name | Description | Type | Package | Framework |
| AligUIManager | Class | org.biojava.nbio.structure.align.webstart | BioJava | |
| BrowserOpener | Class | org.biojava.nbio.structure.align.webstart | BioJava | |
| ConfigXMLHandler | Class | org.biojava.nbio.structure.align.webstart | BioJava | |
| JNLPProxy | Class | org.biojava.nbio.structure.align.webstart | BioJava | |
| PersistentConfig | a class to store the config using the Java Web StartAuthor:Andreas Prlic | Class | org.biojava.nbio.structure.align.webstart | BioJava |
| WebStartDBSearch | A Web Start wrapper for a FarmJobRunnable. | Class | org.biojava.nbio.structure.align.webstart | BioJava |
| WebStartDBSearchResults | Class | org.biojava.nbio.structure.align.webstart | BioJava | |
| WebStartMain | Class | org.biojava.nbio.structure.align.webstart | BioJava | |