Matching white matter fiber tracts across subjects

Jinglei-Lv commented 4 years ago

Guidelines

We are very excited to meet you at the 2020 OHBM Brainhack 🎉 To submit a project, you need to be an attendee of the 2020 OHBM Brainhack. We ask you to register first over here. Thank you!

We have prepared a checklist to help with your project submission. Here is how to proceed:

Before filling in any part, please submit this issue
Check items in the checklist below as you go through them
Once you are done (at least all 'required' items must be provided), please delete the "Guidelines" section add a comment saying 'hi @ohbm/project-monitors: My project is ready!'

Thank you!

After step 1 (issue submitted), we will assign a 'project monitor' to follow your submission. If at any time you need help or anything is unclear, please add a comment and ping your project monitor. Our team is here to help!

Project info

Title: Matching white matter fiber tracts across subjects

Project lead: Jinglei Lv (jinglei.lv(at)sydney.edu.au)

Timezone: Sydney time.

Hub: Asian and Pacific hub.

Description: With diffusion MRI, we can track the axon fibers in the brain white matter. Although a certain level of variability exists, we still believe that there are a substantial amount of fiber bundles/tracts that are common across subjects. Thus, matching the fiber bundles across subjects could help us understand the common architecture of white matter in the human brain. The correspondence realized by the tract matching is beneficial for any tract-based statistics, e.g, FA on tract and functional connectivity on tract.

Link to project: https://github.com/Jinglei-Lv/Matching-white-matter-fiber-tracts-across-subjects.git

Mattermost handle: jinglei.lv

Goals for the OHBM Brainhack

Matching the fiber tracts generated by MRtrix 3 across subjects.
Define the common fiber tracts and quantitatively measure individual variability.

Good first issues:

Find the the voxles/fixels that each fiber tract traverse.
Match fibers by matching the traversed voxles/fixels.

Skills: MRtrix file io/ coding with python/matlab Chat channel: https://mattermost.brainhack.org/brainhack/channels/hbmhack-matching-fiber

Video channel: Please have a look at the mattermost channel (pinned posts) for the URL of the video channel, or alternatively, contact to @ jinglei.lv on Mattermost

Image for the OHBM brainhack website pitch

Project submission

Submission checklist

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

Please include the following above (all required):

[x] Link to your project: could be a code repository, a shared document, etc. See here
[x] Include your Mattermost handle (i.e. your username). If you do not have an account, please sign up here.
[x] Goals for the OHBM Brainhack: describe what you want to achieve during this brainhack. See here.
[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, cf here.
[x] Skills: list skills that would be particularly suitable for your project. We ask you to include at least one non-coding skill, cf. here.
[x] Chat channel: A link to a chat channel that will be used during the OHBM Brainhack. This can be an existing channel or a new one. We recommend using the Brainhack space on mattermost, cf. here.
[x] Video channel: Please create a video channel that will be used during the OHBM Brainhack and share it in your chat channel above. This can be an existing channel or a new one. For instance a jitsi meet room, cf. here.
[x] Provide an image of your project for the OHBM brainhack website

You can also include information about (all optional):

[x] Number of participants, cf. here
[ ] Twitter-size summary of your project pitch, cf. here
[ ] Set up a kanban board on your repository to better divide the work and keep track of things, cf here
[x] Project snippet for the OHBM Brainhack website, cf. here

We would like to think about how you will credit and onboard new members to your project. We recommend reading references from this section. If you'd like to share your thoughts with future project participants, you can include information about (recommended):

[ ] Specify how will you acknowledge contributions (e.g. listing members on a contributing page).
[ ] Provide links to onboarding documents if you have some.

welcome[bot] commented 4 years ago

Welcome Banner (Image: CC-BY license, The Turing Way Community, & Scriberia. Zenodo. http://doi.org/10.5281/zenodo.3332808) :tada: Welcome to the 2020 OHBM Hackathon! :tada: We're really excited to have your input on this repository and welcome your idea! :sparkling_heart: If you haven't done so already, please make sure you check out our Code of Conduct. Did you issue a new hackathon project? Please check if you have provided all relevant information and an image for the website.

jhlegarreta commented 4 years ago

@Jinglei-Lv do you have a video channel for your project? The checkbox was checked but no link was specified. Would you add that information to the mattermost channel, please? Thanks.

Jinglei-Lv commented 4 years ago

@Jinglei-Lv do you have a video channel for your project? The checkbox was checked but no link was specified. Would you add that information to the mattermost channel, please? Thanks.

Updated. Thanks.

complexbrains commented 4 years ago

Dear @Jinglei-Lv I removed the video link in your issue to avoid any unwanted interference. Would you mind sharing that video link at your Mattermost channel and pin that information to that channel, please? Thank you very much 🤗

complexbrains commented 4 years ago

Dear @Jinglei-Lv Your project looks ready. Welcome aboard! :hugs: 🎊

ohbm / hackathon2020