ConfocalVR Downloads

ExMicroVR V2.5

A simplified version of ConfocalVR V3.2 developed for expansion microscopy, and still free to non-profits. It supports multi-channel confocal microscope image-stacks, has an improved user interface, but does not handle DICOM images. 


ConfocalVR V3.2

Now available with Analytics, the “Pro” version of ConfocalVR ($999 USD). It features many new capabilities:

  • Load and manipulate up to 30 channels of 3D image stacks
  • Measure physical distance between points in the image
  • Compute and display voxel intensity histograms
  • Compute Blend functions between pairs of channels
  • Create, Modify, and Save new channels
  • Use “Excluder” objects to hide, or focus on, key image regions
  • Mark and count key image objects (e.g. vacuoles)
  • Display multi-channel image-stacks as short 30 frame movies
  • User image Slicer to select best image view to use for 2D publications


ConfocalVR V2.0 Application



  • In-VR-space file browser for loading files and slider settings
  • “Lean-In” feature that surrounds your head with a culling sphere so you can move into your image and look all around
  • Adjustable rendering quality so you can computationally fill in the space between you image slices
  • Can view NIfTI and DICOM image file formats
  • Free to non-profits

Deprecated Version – ConfocalVR V1.4 Application  –DOWNLOAD

Sample Image Stacks

(download and unzip to get .nii files)

Cell walls (blue), chromosomes (red), spindle fibers (green)

Full organ view

Relocalization of Rab11a in response to toxin treatment – from Dr. Caroline Stefani (BRI). Combination of 2 images side by side: left untreated and right treated with drug.

Super-resolution volumetric image of C.Albican biofilm – from Dr. Yongxin Zhao (CMU)

The data set is a segment of an isolated mesenteric artery. This blood vessel supplies a region of the gut wall and has been pressure fixed at 70mmHg so that the normal shape is conserved.  The fixed artery was then scanned on a laser scanning confocal microscope.  One channel of data has the cell nuclei (red) the other is a mix of autofluorescence and alpha1-adrenoceptors stained with BODIPY FL-prazosin (green).  The holes in the internal elastic lamina (inner surface) are particularly nice in this dataset.   The outer adventitial surface has a sympathetic nerve running along the length of the vessel. From Dr. Craig J Daly, School of Life Sciences, University of Glasgow.