Local Shape Analysis using MANCOVA
logo

Please use this identifier to cite or link to this publication: http://hdl.handle.net/10380/3124
Gross shape measures such as volume have been widely used in statistical analysis of anatomical structures. Statistical shape analysis methods have emerged within the last decade to allow for a localized analysis of shape. Most shape analysis frameworks are though lacking a good statistical underpinning, as they commonly do not allow for the inclusion of independent variables such as age, gender or clinical
scores. This work presents a unified method for local shape analysis that can accomodate different number of variates and contrasts. It also allows to include any number of associated variables in the statistical analysis of the data. Several cases of study are given to clarify the explanation of the different types of data that can be analyzed and the parameters that can be used to tune the program shapeAnalysisMANCOVA. This tool has been designed to interact seamlessly with the existing UNC SPHARM-PDM based shape analysis toolbox.
Code
There is no code review at this time.

Reviews
minus Worth trying on our data by Donna Dierker on 2009-10-26 11:11:28 for revision #1
starstarstarstarstar expertise: 4 sensitivity: 5
yellow
Summary:

These authors have developed a tool that we were in the early stages of developing ourselves.  It looks very much like what we had in mind, and we think it is worth trying on our data.  Besides the source code, some binary executables and sample input/output data would have been very helpful.  (Greedy users.)


 


Also, I might mis-understand how the tool currently works, but it would also be nice if you could output the B matrices for each node from the GLM part for later use in alternative hypotheses.  Our surfaces have 70,000 nodes, so recomputing the betas each time would be a non-trivial runtime burden.

Hypothesis:

The authors assume users are doing 3D shape analyses using surface meshes.

Evidence:

The authors describe three example applications and provide figures showing the output vecors/significance maps.

Open Science:

The authors publish their paper and source code in the ITK journal.

Reproducibility:

I downloaded the source, but did not compile.  While we have the ITK libraries, a few other libraries are required, and I am not up to the task of building them.  I hope I can get binaries from the authors.  So I haven't run it yet.


 


Rather than reproduce their results, I am interested in running on my own data.

Use of Open Source Software:

The authors use ITK.

Open source Contributions:

Yes -- a source tree is provided.

Code Quality :

I haven't read it yet.

Quality of the data :

I didn't see any data, but I would like to.  They do publish the mesh list in the paper, which is the more important input, for my purposes.  I am hopeful we won't have much trouble converting VTK to ITK spatial object format.

Interest:

My boss, David Van Essen, asked this question:  Could we use it for dependent variables other than 3D coordinates.  I don't see why not, but I noted that the selection of avaiable tests seemed tailored to 3D coordinate analyses.

Free comment :

Thank you for sharing this important resource.  I think it could be very useful to our lab's morphometry applications, and we have several of them.

Add a new review
Quick Comments


Resources
backyellow
Download All
Download Paper , View Paper
Download Source code
Github

Statistics more
backyellow
Global rating: starstarstarstarstar
Review rating: starstarstarstarstar [review]
Code rating:
Paper Quality: plus minus

Information more
backyellow
Categories: Mathematics, Statistical shape models
Keywords: Statistical shape analysis, MANCOVA, Multiple comparison problem, permutation tests, SPHARM
Toolkits: ITK, CMake, VTK
Export citation:

Share
backyellow
Share

Linked Publications more
backyellow
Diffeomorphic Demons Using ITK's Finite Difference Solver Hierarchy Diffeomorphic Demons Using ITK's Finite Difference Solver Hierarchy
by Vercauteren T., Pennec X., Perchant A., Ayache N.
Histogram Matching Mesh Filter Histogram Matching Mesh Filter
by Li W., Magnotta V.

View license
Loading license...

Send a message to the author
main_flat
Powered by Midas