Mesoscope features: real-time panoramas, ROI selection, zoom/pan, and dynamic ROIs

Here are some of the features we have been developing to make it easy to build panoramas, pick regions-of-interest, and to visualize ROI location and data during acquisition using the NLW Mesoscope (aka the Kraken) on the latest version of Scanbox.

The video below shows a brief demo of the following:

  1. The automatic creation of panoramas on-the-fly as data are collected.
  2. Selection of region-of-interests (ROIs) directly on the panorama view.
  3. Visualizing ROI data embedded in the panorama.
  4. Dynamically zooming and panning during data collection.
  5. Dynamically changing the location of ROIs by dragging them on the panorama during the collection of data.

Here are some raw data from two separate ROIs, one on each hemisphere.

The ROIs (full panorama FOV in this example is 4.0 x 3.5 mm)


And a short movie with raw data:

Thinking about getting a mesoscope?  Add your wish list of features in the comments below.  Better now than later, as some features can dictate design considerations.



Taking the mesoscope for a test drive

The Neurolabware mesoscope is up and running using our new tower system and today we took it for our first test drive with a tetO mouse.

Here is the very first movie sequence of a large FOV with single-cell resolution.


We can also build a panorama of a large region using Lissajous scanning (other raster methods are available as well).  The panorama below covers 3 by 3.6 mm and it was off-center (my fault).  The microscope is designed for a 4 x 4 mm field of view.


Here is one example of the software constructing such a panorama by stitching adjacent frames together.  This comes from a lily bud:


One can then pick different ROIs to scan fast at a higher magnification from within the panorama.

As it happens, the 3 ROIS were somewhat overlapping in this case (my fault), but it should be enough to show things are working.

The figure below shows the locations of the ROIs within the panorama


So here is small segment of a movie showing the fast, sequential imaging of the three ROIs.  The movie does not look as neat as on my computer (it is Vimeo’s fault this time), but you get the idea.  I hope you can easily see by eye single cells firing.

So things are progressing nicely.  With electronics and optics out of the way, development will now focus on are working on a GUI to allow quick visualization of the panoramas and selection of ROIs and the integration of ROIs into alignment and segmentation tools.

If you are interested in finding more about the mesoscope technical specifications please contact Adrian.