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RitaOlenchuk committed Jun 10, 2021
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# deepNeuroSeg
There are two different segmentation tasks you can perform with deepNeuroSeg: White Matter Hyperintensities (WMH) and Claustrum Segmentation. To learn details about the used deep-learning models please refer to the publications [1] and [2]. As soon as the underlying models are required, they will be downloaded to your computer and placed in ~/.deepNeuroSeg folder.

## White Matter Hyperintenisties (WMH) Segmentation
## White Matter Hyperintensities (WMH) Segmentation
WMH segmentation can be performed either using FLAIR only or both FLAIR and T1 scans. The results would be similar to our experience [1], but the default is using both of them.

![](https://github.com/RitaOlenchuk/deepNeuroSeg/blob/main/images/wmh_example.png?raw=true)
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prediction = segmenter.perform_segmentation()
segmenter.save_segmentation(mask=prediction, outputDir='YOUR_PATH')
```
In both cases, the output mask will be save to specified directory under the name <code>out_mask.nii.gz</code>.
In both cases, the output mask will be saved to a specified directory under the name <code>out_mask.nii.gz</code>.

# References:

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