Julien Cohen-Adad

A recent post from another project https://github.com/ivadomed/ivadomed/issues/501#issuecomment-719990834 suggests to keep dependencies "open". The purpose of this issue is to potentially reconsider the approach taken for this project. Feedback welcome.

Implement optimization algorithms for shimming

4

It would be nice to have a testing script that generates a B0 fieldmap from test data, in order to start implementing different algorithms for optimizing B0 shimming. Once https://github.com/shimming-toolbox/shimming-toolbox-py/pull/15...

### Feature Description: display URL, as currently done in other project like SCT

This page: https://shimming-toolbox.org/en/latest/5_other-resources/hardware/description.html is supposed to include information from MGH about hardware description. One way to include it, would be to centralize all the information (text, pics, etc.) inside the...

Introduced in https://github.com/shimming-toolbox/shimming-toolbox-py/pull/18

of possible interest: https://github.com/dliaomcp/fbstab

currently, when saving a data that has the shape: (40, 42, 5, 1) and dim=4, this can create some problems (e.g., issue #523). should we update the dimension accordingly if...

Indicate versions of `sct_deepseg` models

5

## Related issues - https://github.com/spinalcordtoolbox/spinalcordtoolbox/issues/1572 - https://github.com/spinalcordtoolbox/spinalcordtoolbox/issues/2489 - https://github.com/spinalcordtoolbox/spinalcordtoolbox/issues/2788 - https://github.com/spinalcordtoolbox/spinalcordtoolbox/issues/2959 ## Context As we are more actively training and updating models for `sct_deepseg`, the question of versioning becomes important....

Output lesion statistics per slice

5

> **Note**: This issue is part of a set of issues focused on the overlap in scope between `sct_process_segmentation` and `sct_analyze_lesion`. Both of these scripts compute statistics on binary segments,...

Allow estimated moco transformations to be reused on other data files

3

### Description Have an additional flag to bypass estimation, and only apply transformation to an input data. Example of usage: estimate on real data and apply on imaginary data. _Note:...