https://github.com/akeshavan/mindcontrol

MindControl is an app for quality control of neuroimaging pipeline outputs. Demo:
https://github.com/akeshavan/mindcontrol

Last synced: about 2 months ago
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MindControl is an app for quality control of neuroimaging pipeline outputs. Demo:

• Host: GitHub
• URL: https://github.com/akeshavan/mindcontrol
• Owner: akeshavan
• License: other
• Created: 2016-05-13T01:15:22.000Z (over 8 years ago)
• Default Branch: master
• Last Pushed: 2019-04-26T16:33:46.000Z (over 5 years ago)
• Last Synced: 2024-04-09T02:45:27.447Z (9 months ago)
• Language: JavaScript
• Homepage: http://mindcontrol.herokuapp.com/
• Size: 5.9 MB
• Stars: 54
• Watchers: 8
• Forks: 25
• Open Issues: 21
• Metadata Files:
  • Readme: README.md
  • License: license.txt

Awesome Lists containing this project

• awesoMRI-QC - MindControl

README

        
# mindcontrol

MindControl is an app for quality control of neuroimaging pipeline outputs. 

## Installation

Install meteor 

```

curl https://install.meteor.com/ | sh

```

Clone this repository

```

git clone https://github.com/akeshavan/mindcontrol

```

start the server

```

cd mindcontrol

meteor --settings settings.dev.json

```

In a browser navigate to localhost:3000

## Configure

Create a database json file similar to [http://dxugxjm290185.cloudfront.net/hbn/hbn_manifest.json](http://dxugxjm290185.cloudfront.net/hbn/hbn_manifest.json)

* The required key values pairs are `name` `subject_id` `check_masks` and `entry_type`. 

* Make sure `name` is UNIQUE

* `check_masks` is a list with paths relative to a `staticURL`

* Host your database json file on a server and copy/paste its url into the "startup_json" value on `settings.dev.json`

* Define each module in `settings.dev.json` to point to your `entry_type`, and define the module's `staticURL`

## Demo

Check out the [demo](http://mindcontrol.herokuapp.com/). [This data is from the 1000 Functional Connectomes Project](http://fcon_1000.projects.nitrc.org/fcpClassic/FcpTable.html)

##### Things to do in the demo:

* create an account by clicking **sign in** on the top navigation bar

* click on a site (for example, Baltimore) to only show exams from that site

* In the freesurfer table, click the select box to change the metric of the histogram

![switch histograms](http://dxugxjm290185.cloudfront.net/demo_gifs/histogram_switch.gif)

* Brush the histogram to filter the table, which only shows freesurfer id's that match the brush range 

![brushing and viewing images](http://dxugxjm290185.cloudfront.net/demo_gifs/histogram_brushing_and_image_viewing.gif)

* Save your filter by typing a name in the left text-box

* Click 'reset' to undo the filtering

* Click on a Freesurfer subject id to open a new window that shows the aparc+aseg file

* Mark Pass, Fail, Needs Edits, or Edited, and leave some comments about the image. Click 'save'

* You can log points

![log points](http://dxugxjm290185.cloudfront.net/demo_gifs/logLesion.gif)

* You can log curves

![log curves](http://dxugxjm290185.cloudfront.net/demo_gifs/logContour.gif)

* Edit voxels:

![edit voxels](http://dxugxjm290185.cloudfront.net/demo_gifs/dura_edit.gif)

* (beta) You can collaborate on the same image:

![collaborate](http://dxugxjm290185.cloudfront.net/demo_gifs/syncedViewers.gif)