User Interface

RenderApp

The main user interface is RenderApp.m. This is designed to be as straight-forward as possible for people without MATLAB experience.

RenderApp();

Choose which volume you would like to use. You can't switch volumes inside RenderApp, but you can have multiple windows open simultaneously. To skip the volume selection dialog, provide the volume name or abbreviation as an argument:

% Open NeitzInferiorMonkey
RenderApp('i');

GraphApp

This is designed as an alternative to exporting single neurons into Tulip. Like in Tulip, there are two modes: View and Select. In View mode, you can rotate, zoom and pan (see the Help tab for keyboard controls). In Select mode, you can click on individual annotations (nodes) to get information on location ID.

% Simplest:
GraphApp();

% Or, to skip the dialog boxes:
% Open and load in a new neuron
GraphApp(4568, 'i')
% Or pass in an existing neuron in the workspace
c4568 = Neuron(4568, 'i');
GraphApp(c4568);

You can also reach GraphApp from within RenderApp, by right-clicking on a Neuron in the left panel and selecting Open GraphApp.

Synapse Analysis UIs

There are several other UIs designed for analyzing synapse distributions. These can be reached from inside RenderApp, by right clicking on a neuron in the left checkbox panel, then choosing from one of the Views.

1. StratificationView - histogram of synapse distribution as a function of IPL depth.
2. SomaDistanceView - histogram of synapse distribution as a function of distance from the soma.

GraphApp

RenderApp