nibabies
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nipreps
Processing tools for magnetic resonance images of infant brains
### A short summary of what you would like to see in *NiBabies*. As we are moving to session-based processing, multiple runs of FreeSurfer can clash. We should probably alter...
### A short summary of what you would like to see in *NiBabies*. For visual QC of the subcortical ROI resampling (subcortical_mni_alignment_wf), it would be useful to output a label...
### A short summary of what you would like to see in *NiBabies*. As mentioned in #212 ### Do you have any interest in helping implement the feature? Yes! ###...
### A short summary of what you would like to see in *NiBabies*. - System / CPUs / Memory - Runtime duration - FreeSurfer run? - Precomputed outputs? ### Do...
### A short summary of what you would like to see in *NiBabies*. https://nibabies.readthedocs.io/en/latest/outputs.html is lacking ### Do you have any interest in helping implement the feature? Yes! ### Add...
### A short summary of what you would like to see in *NiBabies*. To allow anyone to run nibabies ### Do you have any interest in helping implement the feature?...
### A short summary of what you would like to see in *NiBabies*. In #212 we had to [backport](https://github.com/nipreps/nibabies/blob/22.0.2/nibabies/utils/viz.py) an earlier version of `fMRIPlot` to avoid drastically changing the workflow....
https://github.com/nipreps/nibabies/blob/8bcf2d7a7df8d8806722353000453cad2af7547b/nibabies/workflows/bold/alignment.py#L8 [Original implementation](https://github.com/DCAN-Labs/dcan-infant-pipeline/blob/bf2e295e49f586d8bce6e9e40ca1400b2a28d030/fMRISurface/scripts/SubcorticalAlign_ROIs.sh#L38) > ${SmoothingFWHM} / ( 2 * ( sqrt ( 2 * l ( 2 ) ) ) )
### A short summary of what you would like to see in *NiBabies*. To convene with fMRIPrep's outputs ### Do you have any interest in helping implement the feature? Yes!...
They are being fed into antsRegistration https://github.com/nipreps/nibabies/blob/c607811c719cc8e9fed03f9b748cd17818452ddb/nibabies/workflows/anatomical/brain_extraction.py#L274 and show up in the `report.rst` ``` * fixed_image : ['/work/nibabies_wf/single_subject_01_wf/infant_anat_wf/infant_brain_extraction_wf/clip_t2w_inu/clipped.nii.gz', '/work/nibabies_wf/single_subject_01_wf/infant_anat_wf/infant_brain_extraction_wf/norm_lap_t2w/clipped.nii.gz'] ... * moving_image : ['/work/nibabies_wf/single_subject_01_wf/infant_anat_wf/infant_brain_extraction_wf/clip_t1w_inu/clipped.nii.gz', '/work/nibabies_wf/single_subject_01_wf/infant_anat_wf/infant_brain_extraction_wf/norm_lap_t1w/clipped.nii.gz'] ``` But are nowhere to...