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Does anyone know what AFNI BIDS derivatives look like?
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Visual QC in standard space can be misleading as it shows non-linear artifacts instead of acquisition artifacts or anatomical anomalies.
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Relates to
- #636
as
```
yoh@typhon:/mnt/DATA/data/yoh/1076_spacetop$ podman run -it --rm -v $PWD:$PWD:ro afni/afni_cmake_build:AFNI_23.1.10 -- @afni_refacer_run -input $PWD/sub-0001/ses-01/…
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Bonjour,
I used Vol2brain to detect white matter lesion/abnormalities in a patient. This was well detected.
When the mni_tissue label 8 ("lesion") is overlayed on the mni_t1 image (left part of t…
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### What happened?
MRIQC fails when uploading IQMs to API.
Error log:
```
/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: divide by zero…
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Caused by smooth_and_crop_layered & smooth_and_crop_skull functions not applying transforms to MNI transformation matrix but only to the structural data itself.
Since you would only transform subject…
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The older mni.cortical.statistics tool could write out a file with a header, which brain-view, and other MNI vertstat\* programs could understand.
It would be nice if RMINC could save in that format …
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Hi, according to the documentation, the `sub-001_T1w_label-lesion_roi.nii.gz` has been put in the bids folder then run the `qsiprerp`.
But I wonder how to get the lesion mask of MNI space? The output…
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I'm using this:
scripts/tf/register.py --moving t1_mni.nii.gz --fixed MNI152_T1_1mm_brain.nii.gz --moved t1_mni_voxelmorph.nii.gz --model vxm_dense_brain_T1_3D_mse.h5
t1_mni.nii.gz is a affined i…