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@@ -74,6 +74,7 @@ Below is a quick guide to setup the enviroment on a UNIX (Mac and Linux) system
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* A high-resolution, DAPI modality TIFF image of a coronal mouse brain slice. Can have multiple channels.
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* The DAPI template file (.nii or .nii.gz)
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* A segmentation of the DAPI template (.nii or .nii.gz)
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## Usage
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Use runner.py to preprocess and output a segmentation registred to the slice. For detailed parameter and output description go to the [automatic segmentation program](./automatic_segmentation_program).
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