Comments (3)
@lenn19 thanks for trying out suspect. I have just uploaded a new page on the documentation: https://suspect.readthedocs.io/en/latest/notebooks/consensus_playground.html. It covers all the standard parts of the processing pipeline, please check it out and then let me know if you still have any problems.
from suspect.
@bennyrowland thanks for your reply.
In your demo notebook I struggle to use the channel combination. With data = data[:, 1] you reduce the dimension of the data to 2 and delete the 32. If I then try to execute noise = data[:,:, -noise_points:] I get the error, that data only has 2 dimensions but 3 are necessary. I think its my fault and I'm getting something wrong, but I would appreciate your help.
Cheers
from suspect.
@lenn19 what kind of data are you starting with (from which manufacturer and in which format)? That will make a difference to the kind of processing required. I realised that the demo notebook had somehow been run out of order and so some of the data was not correct - please check it again now as it is re-run and totally correct, so hopefully easier to follow.
from suspect.
Related Issues (20)
- ENH: channel combination methods should accept an axis parameter
- BUG: load_dicom_volume() only considers .ima or .dcm files HOT 1
- ENH: Add the RATS frequency correction method
- ENH: Add TR parameter to MRSBase object
- ENH: Add functions for absolute quantification
- BUG: calculating axial/sagittal/coronal axes of transform does not use normalised direction vectors
- #BUG Siemens IMA load calculates wrong shape sometimes
- LCModel IO - "VOLUME = NaN" HOT 2
- ENH: overhaul of singlet fitting methods
- Siemens TWIX header variations and possible TWIX reader improvement HOT 3
- Support 2D COSY TWIX reader HOT 6
- frequency axis inverted HOT 1
- `correct_frequency_and_phase`: too many arguments to `residual_water_alignment`
- pydicom >2.0.0 reads MRS with too many elements HOT 2
- Allow update on lmfit's version HOT 1
- Siemens voxel oriented incorrectly with respect to structural MR HOT 4
- Travis CI not working HOT 3
- Compatibility issues in the latest version of Suspecs (v0.4.4) HOT 3
- Anonymize_twix HOT 2
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from suspect.