There exist several excellent tools for the analysis of fMRI and MRI data
(just a few include: AFNI,
so why build another?
As its name implies, QuickVol II is a simple tool designed to enable
quick browsing and visualization of MRI and fMRI data, transformation
and co-registration of volume data sets, and ad-hoc computations using
transformed volumes as inputs, from any Java® enabled platform.
QuickVol II addresses the needs of investigators who would like a single,
platform independent application to assess data as it comes off of the scanner,
with a flexible interface to explore different analysis strategies
(through ad-hoc computations).
Novel experimental designs (such as pharmacological fMRI of investigational compounds)
often generate data for which an established analysis protocol does not exist.
In these cases, it is up to the investigator to determine what computational
approach is needed to test the hypotheses of the work, and generate statistically
significant and meaningful inferences from the data.
As a bonus, the expiration of GE's patent on the
Marchng Cubes algorithm
for surface extraction enables even basic applications like QuickVol II to generate
3D models from multi-slice data, which can be rendered in photo-realistic quality by
third party tools such as POV Ray.
|How do I get started?|
|Proceed to the launch page to get started.
|Citing use of this software|
If you find these tools valuable, we're really pleased. We ask that you please cite their use with the original
Schmidt KF, Ziu M, Schmidt NO, Vaghasia P, Cargioli TG, Doshi S, Albert MS, Black PM, Carroll RS, Sun Y.
Volume reconstruction techniques improve the correlation between histological and in vivo tumor volume measurements in mouse models of human gliomas.
J Neurooncol. 2004 Jul;68(3):207-15.
Where would we be without ImageJ?
Many thanks to Wayne Rasband for this example of the
impact that platform independent and open source software can have on a community.
QuickVol II was created with the support of the Center for Comparative Neuroimaging
at UMASS Medical School. It is based on QuickVol I which was originally created as
a byproduct of work performed with Dr. Yanping Sun at
The Small Animal MRI Laboratory
at Brigham & Women's Hospital. Some data displayed on this website is also the work
product of Drs. Mateo Ziu, Nils Schmidt, and Rona Carroll's team at Harvard Medical School,
Brigham & Women's Hospital. Dr. Robert Laramee's Java implementation of the MarchingCubes cases provides
QuickVol II's surface reconstruction capabilities.
|Contact the author|
Please feel free to contact me with any questions:
Karl Schmidt (karl.schmidt at umassmed.edu)
Doctoral Candidate, Program in Neuroscience
UMASS Medical School
A note on automation of the calculations in QuickVol II.
In the past users have used the excellent macro recording tools in ImageJ to automate
plugins of the MRI Analysis Pak, such as T1 and T2 calculations. This strategy is ill-advised
for QuickVol II, and I recommend that you contact me to discuss the development of scriptable
tools for automated data processing, using the underlying code of the QuickVol II application.
|QuickVol II is free for use in research applications. It is not validated software, and is NOT suitable for ANY clinical applications.