Guidelines for tractography in primates

[Remi-Gau]

Title

Guidelines for tractography in primates

Leaders

Mélina Cordeau (https://twitter.com/CordeauMelina)

Collaborators

David Meunier
Julien Sein
Arnaud Le Troter
https://mattermost.brainhack.org/brainhack/channels/bhg22-marseille-orga

Brainhack Global 2022 Event

Brainhack Marseille

Project Description

Create guidelines i.e. summarize all the important things to know, step by step, to make a good tractogram edition for non-human primate species. A document that would bring together all the parameters that are similar and those that differ between species for preprocessing and tractography. We will focus on marmosets, macaques, baboons and chimpanzees.

Link to project repository/sources

https://colab.research.google.com/drive/1ZABRmtdCtYSdnUxdOiIatfU6VE_hq7iw#scrollTo=gJr_9dXGpJ05

Goals for Brainhack Global

#1. Definition of guidelines based on human best practices
#2. Creation of a parameter file for each primate species
#3. Implementation of a corresponding Wiki in PRIME-RE platform

Good first issues

• BATMAN tutorial: https://osf.io/fkyht/
• QSIPREP and QSIRECON: https://qsiprep.readthedocs.io/en/latest/
• PRIME-RE wiki: https://github.com/PRIME-RE/prime-re.github.io/wiki/Diffusion-processing

Communication channels

https://mattermost.brainhack.org/brainhack/channels/bhg22-marseille-nhpdwi

Skills

• DWI data skills: 75%
• Python coding: 25%
• Be friendly, tolerant, and inclusive: 100%

Onboarding documentation

No response

What will participants learn?

Participants will exchange their expertise, learn to recognize/implement the best ways to proceed in order to achieve a correct tractogram in non-human primates.

Data to use

No response

Number of collaborators

4

Credit to collaborators

Participants will be credited on the Wiki page for their contributions.

Image

Type

documentation

Development status

0_concept_no_content

Topic

diffusion, tractography

Tools

Freesurfer, FSL, MRtrix

Programming language

Python

Modalities

DWI

Git skills

0_no_git_skills

Anything else?

No response

Things to do after the project is submitted and ready to review.

• Add a comment below the main post of your issue saying: Hi @brainhackorg/project-monitors my project is ready!
• Twitter-sized summary of your project pitch.