Skip to content

Single Modelling with Arbor's GUI

Jump to bottom
Thorsten Hater edited this page Aug 31, 2021 · 16 revisions

Here we will show you how to re-create the first Arbor tutorial in the GUI.

Install the GUI

Download one of the binary installers found here https://github.com/thorstenhater/arbor-gui/releases/ this guide was written with https://github.com/thorstenhater/arbor-gui/releases/tag/v6.0.0alpha-2 on a MacBook.

Start the GUI and you should see a window like this

Define a Morphology

As we need a morphology that can be loaded from disk for use in the GUI, we will make a very simple SWC file

1 1     -3.0     0.0     0.0     3   -1
2 1      3.0     0.0     0.0     3    1

which sets up a cell consisting of a 3um soma extending 6um along the x-axis. If you are unfamiliar with SWC, do not worry, this is all we need to do with it. Store this data as eg soma.swc.

Now we need to load this file, in the GUI

  • click on 'File' in the top left
  • choose 'Morphology > Load'
  • navigate to your file using the dialogue
  • pick your file and click 'Load'
  • go to the cell window and take a look at your cell in 3D
Clone this wiki locally