3D wedge

Used for virtual/anatomical regions and non-normalized structures.

Binning operation is designed to show in detail the distribution of processes extending from the centroid of the cell body in several directions. The bins are created by drawing cylinders, parallel planes, and angular wedges based on an axis that runs through the centroid of the cell body and parallel to either the X, Y, or Z-axis.

Procedure

  1. Open the data file.
  2. Select Analyze>Neuron data>Spatial to display the 3-D Wedge Analysis window .
  3. Select the type(s) of structures you wish to analyze.
  4. Click Display.
  5. Set the orientation.
  6. Adjust the parameters:
    • Separation Between Parallel Planes—Parallel planes run perpendicular to the selected axis. That is, if the cylinders are chosen to run parallel to the X-axis, the parallel planes will be parallel to the Y-Z plane.
    • Radial Separation Between Cylinders—The cylinders are concentric right cylinders that are concentrically placed around the axis. The radial separation is the increase in radius from one cylinder to the one that surrounds it.
    • Number of Angular Wedges—The cylinders are divided into bins by dividing the 360 degrees of the cylinder into a set number of angular wedges. The wedges extend from the axis out to the greatest extent of the neuronal processes.

      The orientation of the cylinders and wedges are shown here ; the parallel planes are parallel to the YZ-axis in this case.

      The separation planes are centered on the cell body. Use a separation value that is less than the z depth of the tracing.

  7. Click OK.

Reference

Kawaguchi Y., Karube F., Kubota Y. (2006). Dendritic Branch Typing and Spine Expression Patterns in Cortical Nonpyramidal Cells. Cereb Cortex 16 (5): 696-711.