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DOC: making explicit that FS's HCP version should not be used [skip CI]
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fliem committed Aug 3, 2017
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Expand Up @@ -23,6 +23,19 @@ Freesurfer data has to be in [BIDS format](http://bids.neuroimaging.io),
i.e. subject folders should be named
*sub-<subject_label>*, (e.g., sub-01, sub-02...).

**Important:** The data has to be preprocessed with
Freesurfer's 5.3.0 installation, not the 5.3.0-HCP installation.
The [fliem/freesurfer:v6.0.0-3-FSv5.3.0-1](https://hub.docker.com/r/fliem/freesurfer/tags/)
docker image can be used for that and can be run like this:

docker run -ti --rm \
-v /Users/filo/data/ds005:/bids_dataset:ro \
-v /Users/filo/outputs:/outputs \
fliem/freesurfer:v6.0.0-3-FSv5.3.0-1 \
/bids_dataset /outputs participant --participant_label 01 \
--license_key "XXXXXXXX"


## Models
**Liem2016__OCI_norm**: Model trained on subjects that have no
objective cognitive impairment (OCI) (*OCI norm* in Liem et al., 2017).
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