SNT: Analysis

Revision as of 20:48, 12 December 2019 by Carshadi (talk | contribs) (Sholl Analysis)
Home Manual Walk-throughs Screencasts Shortcuts Analysis Rec. Viewer SciView Cx3D Scripting FAQ


Sholl Analysis

Initiating Sholl Analysis: coarse method

To initiate Sholl Analysis, you must select a focal point. You can do it coarsely by right-clicking near a node and choosing Sholl Analysis at Nearest Node from the contextual menu (Shortcut: Alt + Shift + A.

Alternatively, for precise positioning of the center of analysis:

  1. Mouse over the path of interest. Press G to activate it.
  2. Press Alt+ Shift to select a node along the path.
  3. Press Alt+ Shift+A to start analysis.
  • 1) Select path
  • 2) Snap cursor to node
  • 3) Press "Alt+Shift+A"


The Sholl dialog created by this approach differs slightly from the dialog created by running the Analyze › Sholl › Sholl Analysis (From Tracings)... plugin in the main Fiji menu. First, the center of analysis is automatically taken from the nearest (or exact) node where the user clicks. Another advantage is that the display canvas allows the radius step size to be previewed visually. To do this, toggle on the Preview checkbox under the Sampling section and experiment with different step sizes.

  • 1) Select path
  • 1) Select path


Home Manual Walk-throughs Screencasts Shortcuts Analysis Rec. Viewer SciView Cx3D Scripting FAQ