Unlocking Volocity LE and Using the XYZ Planes View

I decided to show off my Volocity software a few months ago to some of my friends in the scientific community and since then many of them have been able to get to grips with Volocity for themselves by downloading Volocity LE from the Improvision website. Volocity LE is free and has lots of useful imaging functions.

Volocity LE enables you to view image data in 2D, 3D and even 4D, as well as providing tools for image enhancement such as noise reduction filters. It serves as a great way to test drive the intuitive Volocity user interface and core features of the Volocity product range and I quite like the fact that it accepts a range of file formats, as well as being cross platform.

My new research assistant told me the other day that he had tried to download Volocity LE but he had encountered some problems unlocking it. This has inspired me to put together this little tip.

You can download Volocity for free from the Improvision downloads page , however you will need to register the copy first to obtain a serial number and password. After running the Volocity installer, select the Volocity Icon whilst holding down either ‘R’ key on a PC or the Apple or command key if you are on a Mac. This will prompt the registration dialog box

Selecting the Unlock button will then prompt the unlock code dialog box

At this point I simply put in the Serial Number and Unlock Code that the nice people at Improvision emailed to me after registering.

Now that I have unlocked Volocity LE, let’s create a new library and a new image sequence. To do this I double click on the Volocity icon to launch it. I then select file from the top drop down menu and then select New Library...

I can create a new image sequence by selecting Actions from the top drop down menu, select Create new and then Image sequence, this will then produce an untitled image sequence.

At this point I drag my folder of images into the image sequence

I then specify the number of channels, timepoints and Z-Slices per Volume and then select Add.

The new image sequence will be stored in the library. Let’s open the image sequence and take a look at the XYZ planes view.

Initially the Image sequence will open in the Image Sequence view. This shows the channels listed vertically and the time points listed horizontally. This particular image sequence has 3 channels and a single time point. Selecting the Image tab at the top of this window will then open the image view.

The image view gives 4 different views of your data: XY, XZ, YZ and XYZ.

This handy feature enables you to view your sample from three alternate directions, even though your images were acquired only in XY.

What I particularly like to do is drag the XYZ view out to get a better appreciation of my sample . I can rotate this XYZ view as well, to see it from all sides. Just move the cursor onto the views, it turns into a hand and drag to rotate.

There are also a number of useful features on the Toolbar.

I am particularly fond of the inspection tool. This allows you to navigate through the volume. I simply use the cross hair to position the pointer on any of the planes and drag to move through the slices. I like to use this to find the area I’m interested in.

I like the fact that the cross hair colour are different for each plane shown which makes it easier to know at what point you are in the volume.

Now that I have managed to find the object that I am interested in, let’s make it more suitable for publication. First I need a scale bar. To do this I select image with the top drop down menu and then select show scale.

Lastly I want to get this image out of Volocity to publish it. To do this I select image from the top menu again and this time I select capture snapshot. This will take four pictures, one for each view of exactly what I see now, and puts them into a folder in the library.

Opening the folder will reveal these four individual images.

To get the image out of Volocity, I will firstly highlight the thumbnail of the image I want in the Gallery view and then I will select file and then export.

n the export dialog box I then have the option of where I want to save the image and also what type. I normally save my data as a library clipping as this stores all of my settings for later use with Volocity. However, since I intend to publish this image, I will choose Tiff for Publication from the Save as type drop down menu. I then select Export.

Now I have successfully unlocked Volocity LE and got an image worthy of publication and all for free!