Usage Workflows

Phylo-Movies supports four common workflows.

Workflow	Required input	Result
Generated browser example	Precomputed demo data	Opens immediately in the browser demo.
Uploaded tree series	Newick tree file	Builds transition frames between ordered input trees.
Trees with MSA context	Newick tree file and MSA alignment	Shows tree transitions with synchronized alignment windows.
MSA sliding-window inference	MSA alignment	Runs tree inference in windows, then animates the resulting tree series.

Inspect a Transition

1. Load a dataset.
2. Use the movie timeline to find a segment between input trees.
3. Hover for a compact tooltip or select the segment for the Transition Inspector.
4. Review moving taxa, generated frame count, pivot edge, RF metrics, and MSA window data when available.

See Timeline and inspection for the full control reference.

Inspect Recurrent Moved Subtrees

1. Load a dataset that contains SPR move events.
2. Open Analysis -> Moved Subtrees.
3. Use Recurrent Subtrees to find taxa or clades that move repeatedly.
4. Select a recurrent subtree row to mark it in the tree view.
5. Switch to SPR Moves to inspect the source attachment, target attachment, pivot edge, movement metrics, and branch-support or annotation values for each movement event.

See SPR analytics for the table definitions and branch-value filters.

Adjust the View

Use the sidebar to control layout, labels, dimensions, taxa coloring, and focus effects. Use the top-right canvas controls to fit, zoom, reset, save a PNG, or record a WebM.

See Workspace controls, Taxa coloring, and Export and recording for detailed settings.

Export Output

Once a dataset is loaded and the canvas is rendered, the export controls can save:

• a PNG snapshot of the current tree view,
• a WebM screen recording of playback.

Disabled export controls usually mean that no tree canvas is ready yet.