| Name | Description | Type | Package | Framework |
| AbstractTreeTransferHandler | Adapted from freely available code by DeuDeu from http://forum. | Class | ini.trakem2.tree | Fiji |
| DefaultTreeTransferHandler | Adapted from freely available code by DeuDeu from http://forum. | Class | ini.trakem2.tree | Fiji |
| DNDTree | A JTree which has a built-in drag and drop feature. | Class | ini.trakem2.tree | Fiji |
| DTDParser | Reads either a DOCTYPE chunk from an xml file or a . | Class | ini.trakem2.tree | Fiji |
| LayerThing | Class | ini.trakem2.tree | Fiji | |
| LayerTree | Class | ini.trakem2.tree | Fiji | |
| ProjectThing | Class | ini.trakem2.tree | Fiji | |
| ProjectTree | A class to hold a tree of Thing nodesSee Also:Serialized Form | Class | ini.trakem2.tree | Fiji |
| RenameThingStep | Class | ini.trakem2.tree | Fiji | |
| TemplateThing | Class | ini.trakem2.tree | Fiji | |
| TemplateTree | Class | ini.trakem2.tree | Fiji | |
| Thing | Interface | ini.trakem2.tree | Fiji | |
| TitledThing | Interface | ini.trakem2.tree | Fiji | |
| TrakEM2MLParser | A class to parse a file in TrakEM2 XML format. | Class | ini.trakem2.tree | Fiji |
| TransferableNode | Adapted from freely available code by DeuDeu from http://forum. | Class | ini.trakem2.tree | Fiji |