search

ramp-kits / autism

Data Challenge on Autism Spectrum Disorder detection
https://paris-saclay-cds.github.io/autism_challenge/
67 stars 43 forks source link

Dataset features description #18

Open vfdev-5 opened 6 years ago

vfdev-5 commented 6 years ago

Hi, I was just wondering whether somewhere there is a more detailed and structured description of data features? For example, what is participants_site ? Thanks

alrzmshy commented 6 years ago

I second that. Domain knowledge would be very helpful for this challenge as there are people that are not familiar with the description of features.

glemaitre commented 6 years ago

Participants site are the hospital where the acquisition have been done.

glemaitre commented 6 years ago

@alirezamosh check also the website. If you have more questions we can discuss in more details.

vfdev-5 commented 6 years ago

@glemaitre concerning "anatomy" features this site has been already sited in one of the issues. Maybe it would good to include it as a reference for those who is not famiiliar with the domain.

glemaitre commented 6 years ago

I see.

@GaelVaroquaux Do you think that it should be added in a sort of introduction in the notebook or shall we have a wiki or an aside page info for those features. I am scared to clutter the notebook by adding up information.

vfdev-5 commented 6 years ago

I am scared to clutter the notebook by adding up information.

This information can be stored in a additional file, for example

glemaitre commented 6 years ago

This information can be stored in a additional file, for example

Yep I had in mind the following suggestion:

vfdev-5 commented 6 years ago

Another question for brain anatomy specialists, according to wiki it seems there are 4 ventricles:

However in the data we have also anatomy_5th-Ventricle column with data like:

image

EDIT: seems FreeSurfer speaks about the 5th ventrice too :

BrainSegNotVent - same as BrainSeg without ventricles (lateral, inferior lateral, 3rd, 4th, 5th), CSF, and choroid plexus.

glemaitre commented 6 years ago

@vfdev-5 You are right. The extraction was done with FreeSurfer so you will find information there regarding the anatomy.

glemaitre commented 6 years ago

@vfdev-5 you can let this issue opened. This is actually useful and this is not a duplicate.

akatav commented 6 years ago

I am wondering what the following anatomical features mean (are they thickness or area or volume measures ?)

vfdev-5 commented 6 years ago

For more info on fsMRI, connectivity I found the article "Learning and comparing functional connectomes across subjects" and "Nilearn docs" somehow helpful.

HTH

romainVala commented 6 years ago

@suprsankr those measures are volume because they are not in the cortex (only cortical area are defined between 2 surface which allow the quantification of mean thickness and area)

akatav commented 6 years ago

@romainVala thank you! i did not quite understand the second part of the answer. The above measures are also volume measures (such as anatomy_Optic-Chiasm..) except that they are not part of the cortex. So these regions cannot conveniently be measured for a thickness and area measure. However for a non brain scientist, it suffices to know that the above measures are just volume measures. correct ? :)

romainVala commented 6 years ago

yes