Marmoset MRI Analysis Pipeline

[christopherrowley]

Please fill in the below table to submit your project proposal!

Field	Value
Project Name	Marmoset MRI Analysis Pipeline
Description	Develop a pipeline where users can input MRI data with different resolutions and contrasts and have it be registered to a group average template. From here, the brain can be divided based on atlas based regions-of-interest, or move to a surface-based pipeline to investigate MR values at specified cortical depths.
URL(s)	Your relevant URL(s) here
Contributors' Brainhack Slack handle	Your slack handle here
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[patrickmineault]

That's a really cool idea! Is the data already published?

[christopherrowley]

We have some inital data that we have collected recently that is not published. But there are a few atlases that currently exist and are published that can be used. One example is the NIH atlas (https://www.sciencedirect.com/science/article/pii/S1053811917310182?via%3Dihub) .
It would also be cool to have the pipeline be able to port in the histology atlases to allow you to compare against, provided that they are registered to the template atlas.