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Update using-clairvoy.md
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Edited text, updated references to Giulia's paper
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francopestilli authored Sep 26, 2024
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## Welcome to Clairvoy.

Clairvoy is an experimental [brainlife.io](https://brainlife.io) App. The Clairvoy App utilizes a machine learning, prognostic model to predict whether someone who has experienced a concussion is at risk for slow recovery (defined as not cleared for full return to sport at greater than 28 days). The diffusion-weighted and T1-weighted MRI should be collected 24-48 hours after a diagnosed concussion. This experimental tool is entirely based on the publication of Bertó et al. 2024 (Neuroimage: Clinical, In Press). Clairvoy was funded by the U.S. Department of Defense, award W81XWH-20-1-0717, PI: Nicholas L Port. The dataset analyzed by Bertó et al. is from the NCAA/DOD CARE Consortium and was jointly funded by the NCAA and DOD, award W81XWH-14-2-0151, PI: Thomas W McAllister.
Clairvoy is an prototype [brainlife.io](https://brainlife.io) App. The Clairvoy App utilizes a machine learning, model to predict whether someone who has experienced a concussion is at risk for slow recovery (defined as the lack of clinical clearance for full return to sport at greater than 28 days). The diffusion-weighted and T1-weighted MRI should be collected 24-48 hours after a diagnosed concussion. This experimental tool is entirely based on the publication of [Bertó et al. 2024 (NeuroImage: Clinical, 43, 103646)](https://doi.org/10.1016/j.nicl.2024.103646). Clairvoy was funded by the U.S. Department of Defense, award W81XWH-20-1-0717, PI: Nicholas L Port. The NCAA/DOD CARE Consortium collected the dataset analyzed by Bertó et al. The data collection was jointly funded by the NCAA and DOD, award W81XWH-14-2-0151, PI: Thomas W McAllister.

We encourage clinicians and scientists to try Clairvoy and appreciate any feedback on how to refine the app.
Drs. [Port](mailto:nport@iu.edu) and [Pestilli](mailto:pestilli@utexas.edu) are actively seeking funding to conduct a clinical trial to validate Clairvoy, but, at present, Clairvoy has not been validated for clinical use. Thank you for trying Clairvoy and helping us improve it.
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The Clairvoy App lives inside the [brainlife.io](https://brainlife.io) platform, an easy-to-use, web-based, Open Science data analysis platform focused on neuroimaging. Free and open to anyone in the world, Brainlife has over 1,000 users across dozens of countries. Brainlife offers free access to the super-computer built into the platform. If you become a regular user, you can connect your (super-)computer to BrainLife, which may significantly speed up your analyses. Before using Cairvoy, you will need a free Brainlife login. We recommend reading the [brainlife.io getting started guide](https://brainlife.io/docs/user/started/). There are also many helpful videos on the [brainlife.io YouTube channel](https://www.youtube.com/@brainlifeio/videos).

Clairvoy uses the web-based ezBIDS tool (built into Brainlife) to import Dicom files, convert them automatically to NIfTI format, and then create a BIDS project (Brain Imaging Data Structure). You can learn more about ezBIDs at [this link](https://brainlife.io/docs/using_ezBIDS/) and watch a video at [this link](https://www.youtube.com/watch?v=KvhIHxzHsl4). The dMRI and T1 protocols can be found in Berto, et al. (Neuroimage: Clinical, In Press) 2024 and Nencka, et al. 2018 (Brain Imaging Behav 12:1121-1140).
Clairvoy uses the web-based ezBIDS tool (built into Brainlife) to import Dicom files, convert them automatically to NIfTI format, and then create a BIDS project (Brain Imaging Data Structure). You can learn more about ezBIDs at [this link](https://brainlife.io/docs/using_ezBIDS/) and watch a video at [this link](https://www.youtube.com/watch?v=KvhIHxzHsl4). The dMRI and T1 protocols can be found in [Bertó et al. 2024 (NeuroImage: Clinical, 43, 103646)] and [Nencka, et al. 2018 (Brain Imaging Behav 12:1121-1140)](https://doi.org/10.1007/s11682-017-9775-y).

### Step-by-step directions for Clairvoy:

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