Development of the SLAM -Surface anaLysis And Modeling- python package

[alexpron]

Project info

Title: Development of the SLAM -Surface anaLysis And Modeling- python package

Project lead: Guillaume Auzias will be the main project manager and will be helped by Alexandre Pron during this brainhack.

Project collaborators: Main developers are the members of the MeCA team (http://meca-brain.org/), but we are welcoming warmly external collaborators, contributors and users.

Registered Brainhack Global 2020 Event: Brainhack Marseille

Project Description: Slam (https://gauzias.github.io/slam/) is an open source python package dedicated to the representation of neuroanatomical surfaces stemming from MRI data in the form of triangular meshes and to their processing and analysis.

Main features include read/write gifti (and nifti) file format, geodesic distance computation, several implementations of graph Laplacian and Gradient, mesh surgery (boundary identification, large hole closing), several types of mapping between the mesh and a sphere, a disc... Have a look at the examples on the documentation website: https://gauzias.github.io/slam/auto_examples/index.html

Data to use:

Link to project repository/sources: https://github.com/gauzias

Goals for Brainhack Global 2020: During this brainhack, our objectives are:

• to add as a new feature the algorithms for computing surface profiling as described in Li, K., Guo, L., Li, G., Nie, J., Faraco, C., Cui, G., Zhao, Q., Miller, L.S. and Liu, T., 2010. Gyral folding pattern analysis via surface profiling. NeuroImage, 52(4), pp.1202-1214. https://doi.org/10.1016/j.neuroimage.2010.04.263

• to improve the documentation with new examples to enrich the gallery (https://gauzias.github.io/slam/auto_examples/index.html), which helps a lot potential new users

• to further improve code quality with new unitest and potential speed-up of specific pieces of code such as for instance the computation of the curvature

• to help potential users to get familiar with this python package

• we are of course also open if new features are proposed from the contributors

Good first issues:

1. Share ideas, remarks, bugs using Github issues (https://github.com/gauzias/slam/issues)
2. Check generic guidelines and installation instructions (https://github.com/gauzias/slam/blob/master/README.md)

Skills: python 50%, mesh processing 20%, will to share ideas and good time 100% Minimal skills in python coding and github are required, but various levels of expertise are welcome since some of our objectives can be addressed with limited coding effort such as augmenting the documentation.

Tools/Software/Methods to Use:

Communication channels:

Video channel:

• [x] I added all of the labels I want an associate to my project

Project Submission

Submission checklist

Once the issue is submitted, please check items in this list as you add under ‘Additional project info’

• [x] Link to your project: could be a code repository, a shared document, etc.
• [x] Goals for Brainhack Global 2020: describe what you want to achieve during this brainhack.
• [x] Flesh out at least 2 “good first issues”: those are tasks that do not require any prior knowledge about your project, could be defined as issues in a GitHub repository, or in a shared document.
• [x] Skills: list skills that would be particularly suitable for your project. We ask you to include at least one non-coding skill. Use the issue labels for this purpose.

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• [ ] Number of participants required.
• [ ] Twitter-sized summary of your project pitch.
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[alexpron]

Hi @Brainhack-Global/project-monitors: my project is ready!

[complexbrains]

Hi @alexpron awesome! All looks fine! Let's teleport your project to our project page! Hope you enjoy your participation in the Brainhack Global 2020 🎉 🚀 🧠

[alexpron]

Thank you very much for your help and support @complexbrains, nice machinery and organisation of the projects publication.