diff --git a/README.md b/README.md index 1bbd873d..a7a06adb 100644 --- a/README.md +++ b/README.md @@ -30,6 +30,16 @@ Problems with this approach: iv. The ivadomed model needs to be tested ## Processing pipeline to generate softseg ground truth +The internal datset `spine-generic-processed` is used for the processng pipeline. + +Briefly, the spinal cord is segmented for each contrats, all images are registered to T2w and the transformation is applied on the spinal cord segmentations. +The segmentations are averaged following their coverage/feild of view. All segmentations are brought back to their native space. +### Dependencies + +- [SCT 5.3.0](https://github.com/neuropoly/spinalcordtoolbox/releases/tag/5.3.0) +- Python 3.7. + +### Processing Specify the path of preprocessed dataset with the flag `-path-data`. Launch processing: