Clustintime: a toolbox for spatio-temporal clustering of fMRI data
Leaders
Cris Tobías (@cristobias)
Collaborators
No response
Brainhack Global 2023 Event
Brainhack Donostia
Project Description
What are you doing, for whom, and why?
This project is a toolbox that allows researchers in neuroimage to apply clustering methods to fMRI data on the spatiotemporal domain. Conventional methods of clustering in fMRI allow to see spatial patterns but cannot describe the temporal dynamics of functional activity.
What makes your project special and exciting?
Providing a tool for researchers interested in analyzing brain patterns in uncontrolled fmri experiments or clinical settings is a necessity that has not been covered yet and that could be done through clustintime.
How to get started?
Clustintime has been under development for a few years and has been already tried on data from individual epileptic patients, the skeletton of the project is already done, now there is need to transform it into a proper toolbox to release the first version of the software.
Python: advanced (only for those that want to develop new methods)
Markdown: intermediate
Bash: begginer
Onboarding documentation
No response
What will participants learn?
Experience on collaborating with git
Experience on how to design and build an open-source library
Different methods of fMRI visualization
Unsupervised machine learning methods for fMRI
Data to use
No response
Number of collaborators
more
Credit to collaborators
Project contributors will be acknowledged as contributors in GitHub, credit will also be given in future publications (if any) to those who make a major contribution to the toolbox.
Remi-Gau
commented
1 year ago
Title
Clustintime: a toolbox for spatio-temporal clustering of fMRI data
Leaders
Cris Tobías (@cristobias)
Collaborators
No response
Brainhack Global 2023 Event
Brainhack Donostia
Project Description
What are you doing, for whom, and why? This project is a toolbox that allows researchers in neuroimage to apply clustering methods to fMRI data on the spatiotemporal domain. Conventional methods of clustering in fMRI allow to see spatial patterns but cannot describe the temporal dynamics of functional activity.
What makes your project special and exciting? Providing a tool for researchers interested in analyzing brain patterns in uncontrolled fmri experiments or clinical settings is a necessity that has not been covered yet and that could be done through clustintime.
How to get started? Clustintime has been under development for a few years and has been already tried on data from individual epileptic patients, the skeletton of the project is already done, now there is need to transform it into a proper toolbox to release the first version of the software.
Where to find key resources? The project already has its repository on GitHub (https://github.com/Cristina-Tobias/clustintime) and a public fMRI data will be used for testing.
Link to project repository/sources
https://github.com/Cristina-Tobias/clustintime
Goals for Brainhack Global
Create integration testing suite/framework Create CI/CD pipeline Populate CI/CD pipeline with checks
Release version 0.1.0
Create documentation Improve user experience of adding input Structure output messages
Release version 0.2.0
Introduce new features
Release version 1.0.0
Good first issues
Issue 1: Create integration testing suite/framework
Issue 2: Create CI/CD pipeline
Issue 3: Populate CI/CD pipeline with checks
Communication channels
https://mattermost.brainhack.org/brainhack/channels/clustintime
Skills
Onboarding documentation
No response
What will participants learn?
Data to use
No response
Number of collaborators
more
Credit to collaborators
Project contributors will be acknowledged as contributors in GitHub, credit will also be given in future publications (if any) to those who make a major contribution to the toolbox.
Image
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Type
coding_methods, documentation, method_development, pipeline_development
Development status
1_basic structure
Topic
data_visualisation, machine_learning
Tools
other
Programming language
Python
Modalities
fMRI
Git skills
2_branches_PRs
Anything else?
No response
Things to do after the project is submitted and ready to review.
Hi @brainhackorg/project-monitors my project is ready!