Intro

The VCell (https://vcell.org/) application can export spatial simulation results into multiple formats, with .N5 (https://imagej.net/libs/n5) being one of them. N5 exports are stored remotely on VCell servers, allowing applications such as ImageJ to directly access the results of these simulations and perform analyses.

Export Visualization

Virtual Cell has special techniques for spatial simulation results so that they are visually compelling while accurate to their source data. Those automatic techniques are not implemented within this plugin, so if an export is visually different from VCell's please go to Image -> Adjust -> Brightness/Contrast, and adjust it to a point where it is similar.

Dimension Properties

Accessing Simulation Results

For VCell exports generated from your local VCell installation:

From N5 URL (VCell Install Not Required):