https://github.com/aswendt-lab/aidaconnect
Mouse brain network analysis of rs-fMRI and DTI data using graph theory
Science Score: 36.0%
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Found 2 DOI reference(s) in README -
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Low similarity (12.2%) to scientific vocabulary
Repository
Mouse brain network analysis of rs-fMRI and DTI data using graph theory
Basic Info
Statistics
- Stars: 9
- Watchers: 2
- Forks: 4
- Open Issues: 1
- Releases: 3
Metadata Files
README.md
AIDAconnect
Atlas-based Imaging Data Analysis Pipeline (AIDA) for structural and functional MRI of the mouse brainAIDAconnect is a comprehensive collection of MATLAB scripts for mouse brain MRI data analysis and connectivity analysis using graph theory. A detailed guide for the installation process and the usage of AIDAconnect is written in the manual.
Information about Version 1.0
Information about Version 1.1
Information about Version 2.0
INSTALLATION
=> MANUAL
EXAMPLE FILES
Download here (you probably have to clone the dataset from the gin repo. The files are annexed files, also use the raw_data folder as the test data).\ Mouse MRI data, acquired with Bruker 9.4T - cryo coil setup: adult C57BL7/6 mouse, T2-weighted (anatomical scan), DTI (structural connectivity scan), rs-fMRI (functional connectivity scan).
The given tools from AIDAconnect are provided for anatomical T2-weighted MRI (T2w), diffusion tensor imaging (DTI) and resting-state functional MRI (rs-fMRI) data and are currently designed for creating weighted-undirected graphs only.
CONTACT
Leon Scharwächter and Markus Aswendt (contact: markus.aswendt@uk-koeln.de)
CONTACT
Chat with us 
or
join our Open Office Hour - each Thursday 4:30 pm (UTC+2)
LICENSE
GNU General Public License v3.0
REFERENCES
- AIDAmri
- Brain Connectivity Toolbox
- Allen Mouse Brain Reference Atlas
- Niftyreg
- Ourselin, et al. (2001). Reconstructing a 3D structure from serial histological sections. Image and Vision Computing, 19(1-2), 25–31.
- Modat, et al. (2014). Global image registration using a symmetric block- matching approach. Journal of Medical Imaging, 1(2), 024003–024003.
- Rueckert, et al. (1999). Nonrigid registration using free-form deformations: Application to breast MR images. IEEE Transactions on Medical Imaging, 18(8), 712–721.
- Modat, et al. (2010). Fast free-form deformation using graphics processing units. Computer Methods And Programs In Biomedicine,98(3), 278–284.
- FSL
- M.W. Woolrich, S. Jbabdi, B. Patenaude, M. Chappell, S. Makni, T. Behrens, C. Beckmann, M. Jenkinson, S.M. Smith. Bayesian analysis of neuroimaging data in FSL. NeuroImage, 45:S173-86, 2009
- S.M. Smith, M. Jenkinson, M.W. Woolrich, C.F. Beckmann, T.E.J. Behrens, H. Johansen-Berg, P.R. Bannister, M. De Luca, I. Drobnjak, D.E. Flitney, R. Niazy, J. Saunders, J. Vickers, Y. Zhang, N. De Stefano, J.M. Brady, and P.M. Matthews. Advances in functional and structural MR image analysis and implementation as FSL. NeuroImage, 23(S1):208-19, 2004
- M. Jenkinson, C.F. Beckmann, T.E. Behrens, M.W. Woolrich, S.M. Smith. FSL. NeuroImage, 62:782-90, 2012
- DSIstudio
Owner
- Name: Aswendt-Lab
- Login: Aswendt-Lab
- Kind: organization
- Location: Germany
- Repositories: 3
- Profile: https://github.com/Aswendt-Lab
GitHub Events
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- Watch event: 2
- Push event: 1
- Fork event: 2
Last Year
- Watch event: 2
- Push event: 1
- Fork event: 2