scanometrics
Python package for automated normative modeling of MRI anatomical scans
Science Score: 57.0%
This score indicates how likely this project is to be science-related based on various indicators:
-
✓CITATION.cff file
Found CITATION.cff file -
✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
✓DOI references
Found 8 DOI reference(s) in README -
○Academic publication links
-
○Academic email domains
-
○Institutional organization owner
-
○JOSS paper metadata
-
○Scientific vocabulary similarity
Low similarity (9.2%) to scientific vocabulary
Repository
Python package for automated normative modeling of MRI anatomical scans
Basic Info
- Host: GitHub
- Owner: SCAN-NRAD
- License: bsd-3-clause
- Language: Python
- Default Branch: main
- Size: 18.5 MB
Statistics
- Stars: 2
- Watchers: 2
- Forks: 0
- Open Issues: 0
- Releases: 1
Metadata Files
README.md
ScanOMetrics
Welcome to the ScanOMetrics repository !
About
ScanOMetrics is an open-source software for normative modeling from MRI scans. Our tool currently provides a GUI for basic MRI processing, statistical evaluation against a reference population, and visualization of results with 3D surface rendering as well as detailed cloudpoints and metric spyder plots.
Documentation
For installation and usage of the ScanOMetrics package, check our documentation
How to cite
When publishing work related to ScanOMetrics, please cite the following article:
Rummel C, Aschwanden F, McKinley R, Wagner F, Salmen A, Chan A, Wiest R. A Fully Automated Pipeline for Normative Atrophy in Patients with Neurodegenerative Disease. Front Neurol. 8:727 (2018). https://doi.org/10.3389/fneur.2017.00727
Cited by
ScanOMetrics has been used in the following studies:
Romascano D, Rebsamen M, Radojewski P, Blattner T, McKinley R, Wiest R, Rummel C Cortical thickness and grey-matter volume anomaly detection in individual MRI scans: Comparison of two methods. NeuroImage: Clinical, 43, p.103624 (2024) https://doi.org/10.1016/j.nicl.2024.103624 Rebsamen M, Suter Y, Wiest R, Reyes M, Rummel C. Brain morphometry estimation: From hours to seconds using deep learning. Frontiers in neurology, 11:244 (2020) https://doi.org/10.3390/brainsci13091270 Rummel C, Slavova N, Seiler A, Abela E, Hauf M, Burren Y, Weisstanner C, Vulliemoz S, Seeck M, Schindler K, Wiest R Personalized structural image analysis in patients with temporal lobe epilepsy. Sci Rep 7, 10883 (2017). https://doi.org/10.1038/s41598-017-10707-1
Owner
- Name: Support Center for Advanced Neuroimaging (SCAN)
- Login: SCAN-NRAD
- Kind: organization
- Location: Bern, Switzerland
- Website: http://scancore.org
- Twitter: ScanNeuroradBE
- Repositories: 4
- Profile: https://github.com/SCAN-NRAD
University Institute of Diagnostic and Interventional Neuroradiology, University of Bern, Inselspital, Bern University Hospital
Citation (CITATION.cff)
cff-version: 1.2.0
message: "If you use this software, please cite the following papers:"
authors:
- family-names: "Rummel"
given-names: "Christian"
- family-names: "Aschwanden"
given-names: "Fabian"
- family-names: "McKinley"
given-names: "Richard"
- family-names: "Wagner"
given-names: "Franca"
- family-names: "Salmen"
given-names: "Anke"
- family-names: "Chan"
given-names: "Andrew"
- family-names: "Wiest"
given-names: "Roland"
title: "A fully automated pipeline for normative atrophy in patients with neurodegenerative disease"
doi: 10.3389/fneur.2017.00727
url: https://www.frontiersin.org/journals/neurology/articles/10.3389/fneur.2017.00727/full
preferred-citation:
type: article
authors:
- family-names: "Rummel"
given-names: "Christian"
- family-names: "Aschwanden"
given-names: "Fabian"
- family-names: "McKinley"
given-names: "Richard"
- family-names: "Wagner"
given-names: "Franca"
- family-names: "Salmen"
given-names: "Anke"
- family-names: "Chan"
given-names: "Andrew"
- family-names: "Wiest"
given-names: "Roland"
doi: "10.3389/fneur.2017.00727"
journal: "Frontiers in neurology"
month: 1
start: 727
title: "A fully automated pipeline for normative atrophy in patients with neurodegenerative disease"
volume: 8
year: 2018
GitHub Events
Total
- Release event: 2
- Delete event: 5
- Push event: 25
- Pull request event: 8
- Create event: 3
Last Year
- Release event: 2
- Delete event: 5
- Push event: 25
- Pull request event: 8
- Create event: 3
Dependencies
- matplotlib >=3.5.2
- nibabel >=3.2
- numpy >=1.22.3
- scipy >=1.8.1
- Sphinx >=5,<6
- matplotlib >=3.5.2
- nibabel >=3.2
- numpy >=1.22.3
- scipy >=1.8.1
- sphinx_rtd_theme ==1.0.0