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github.com/rambaut/figtree @v1.4.4

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2,717 symbols 6,768 edges 211 files 455 documented · 17% 4 cross-repo links

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README

FigTree

FigTree is designed as a graphical viewer of phylogenetic trees and as a program for producing publication-ready figures. As with most of my programs, it was written for my own needs so may not be as polished and feature-complete as a commercial program. In particular it is designed to display summarized and annotated trees produced by BEAST.

Extension points exported contracts — how you extend this code

IValidatable (Interface)

packaging_tools/windows/launch4j/src/net/sf/launch4j/binding/IValidatable.java

TreeViewerListener (Interface)

@author Andrew Rambaut @version $Id$ $HeadURL$ $LastChangedBy$ $LastChangedDate$ $LastChangedRevision$ [9 implementers]

src/figtree/treeviewer/TreeViewerListener.java

Binding (Interface)

packaging_tools/windows/launch4j/src/net/sf/launch4j/binding/Binding.java

Decorator (Interface)

@author Andrew Rambaut @version $Id$ $HeadURL$ $LastChangedBy$ $LastChangedDate$ $LastChangedRevision$ [8 implementers]

src/figtree/treeviewer/decorators/Decorator.java

AttributeComboHelperListener (Interface)

@author Andrew Rambaut @version $Id$ $HeadURL$ $LastChangedBy$ $LastChangedDate$ $LastChangedRevision$ [5 implementers]

src/figtree/treeviewer/painters/AttributeComboHelperListener.java

ScalePainter (Interface)

@author Andrew Rambaut @version $Id$ $HeadURL$ $LastChangedBy$ $LastChangedDate$ $LastChangedRevision$ [4 implementers]

src/figtree/treeviewer/painters/ScalePainter.java

TreeSelectionListener (Interface)

@author Andrew Rambaut @version $Id$ $HeadURL$ $LastChangedBy$ $LastChangedDate$ $LastChangedRevision$ [2 implementers]

src/figtree/treeviewer/TreeSelectionListener.java

Core symbols most depended-on inside this repo

add

called by 386

packaging_tools/windows/launch4j/src/net/sf/launch4j/Builder.java

setEnabled

called by 250

packaging_tools/windows/launch4j/src/net/sf/launch4j/binding/Binding.java

put

called by 247

packaging_tools/windows/launch4j/src/net/sf/launch4j/binding/Binding.java

add

called by 247

packaging_tools/windows/launch4j/src/net/sf/launch4j/formimpl/JreFormImpl.java

get

called by 224

packaging_tools/windows/launch4j/src/net/sf/launch4j/binding/Binding.java

append

called by 189

packaging_tools/windows/launch4j/src/net/sf/launch4j/Log.java

setName

called by 122

src/figtree/treeviewer/annotations/AnnotationDefinition.java

getString

called by 113

packaging_tools/windows/launch4j/src/net/sf/launch4j/form/Messages.java

Shape

Method 2,377

Class 244

Function 55

Enum 23

Interface 18

Languages

Java98%

C2%

Modules by API surface

src/figtree/treeviewer/TreePane.java151 symbols

src/figtree/treeviewer/DefaultTreeViewer.java88 symbols

src/figtree/application/FigTreeFrame.java82 symbols

src/figtree/treeviewer/MultiPaneTreeViewer.java75 symbols

src/figtree/treeviewer/TreeViewer.java64 symbols

src/figtree/treeviewer/ReRootedTree.java62 symbols

packaging_tools/windows/launch4j/src/net/sf/launch4j/config/Config.java56 symbols

src/figtree/treeviewer/DiscreteColourScaleDialog.java46 symbols

packaging_tools/windows/launch4j/head_src/head.c42 symbols

src/figtree/treeviewer/ScaleAxis.java36 symbols

src/figtree/treeviewer/treelayouts/PolarTreeLayout.java33 symbols

packaging_tools/windows/launch4j/src/net/sf/launch4j/config/Jre.java31 symbols

Used by 4 indexed graphs manifest dependencies, hub-wide

github.com/huntabyte/shadcn-svelte

github.com/rocketride-org/rocketride-server

github.com/tmoroney/auto-subs

github.com/unslothai/unsloth

For agents

$ claude mcp add figtree \
  -- python -m otcore.mcp_server <graph>

⬇ download graph artifact

github.com/rambaut/figtree @v1.4.4

Extension points exported contracts — how you extend this code

Core symbols most depended-on inside this repo

Shape

Languages

Modules by API surface

Used by 4 indexed graphs manifest dependencies, hub-wide

For agents

Ask about this repo answers extend the page