Placing Nodes

Treemble lets you mark every tip, internal, and root node so it can reconstruct the full topology.

1. Select a Node Tool

Tool	Toolbar Button	Purpose
Tip	Tip button	Terminal leaves
Internal	Internal button	Marks a splitting of branches
Root	Root button	Single common ancestral node

Note: Click the same button again to exit the tool. When no tool is selected you can click the left mouse button and drag to pan around the image (this always works for the right mouse button even when you are in a tool mode).

2. Add or Remove a Node

1. Move the cross-hair over the desired pixel location.
2. Click once to add the node.
3. Click the node again to remove it.

Note: There can only be one root. If you click a second time with the root node tool, it will move the root to the new position.

Left click and drag to fine-tune a node’s position.*

3. Automatic Tip Detection

Bifurcating trees always have 2n - 1 nodes where n is the number of tips, so the tips are more than half of the nodes! Treemble will automatically detect them for you and add tip dots at their locations. Just click Detect Tips in the tool bar and drag a rectangle around only the tips, then release the mouse button and node dots will appear. Don't include text or internal node locations in the selection rectangle.

4. Equalize Tips

The Equalize Tips button will allow you to click a point on the image to set the X-axis coordinate of all tip nodes X-axis position. This is useful if you are creating a newick for a time-calibrated tree that should ultrametric.

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