nipreps / smriprep

Structural MRI PREProcessing (sMRIPrep) workflows for NIPreps (NeuroImaging PREProcessing tools)

https://nipreps.github.io/smriprep

nipreps/smriprep Issues

Error in documentation on nipreps.org/smriprep/usage.html
Updated 2 months ago
23.2.0a3: `template_iterator_wf.select_xfm` failing with `MNIPediatricAsym` when cohort specified
Updated 2 months ago15
Enable longitudinal structural analysis
Updated 2 months ago3
Myelin maps (T1w/T2w)
Updated 2 months ago1
Brain tissue segmentation fmriprep wrong labelling for few subjects
Updated 3 months ago
Any smriprep fix for Freesurfer 7.3.2 FLAIR Pial Surface placement bug?
Updated 4 months ago3
fmriprep error "ValueError: 'MNIPediatricAsym:cohort-3' is not in list"
Closed 4 months ago1
Support newMSM
Updated 5 months ago
`recon-all` not detected (v0.13.1) during run with singularity
Closed 7 months ago9
T1w images incorrectly detected as skull-stripped (difference between 0.12.2 -> 0.13.1)
Closed 7 months ago1
Denoise and INU correct anatomical images post-merge
Updated 8 months ago1
23.2.0a1: `DynamicTraitedSpec` object has no attribute `T1w_preproc`
Closed 8 months ago1
Move to ruff?
Closed 8 months ago3
Add Connectome Workbench to listed external dependencies
Closed 8 months ago1
FLAIR surface refinement not mentioned in boilerplate text
Closed 8 months ago
singularity issue, growing containers and the like
Updated 8 months ago2
Output FreeSurfer surface area in fsLR space
Closed 8 months ago2
Morphometry conventions
Closed 8 months ago1
TemplateFlow interface doctests fail
Closed 8 months ago1
midthickness node Crashing
Closed 8 months ago10
the volume and surface in T1w sapce didn't align precisely
Closed 8 months ago1
Add option to use SynthSeg as alternative to recon-all
Updated 8 months ago2
Fit/apply breakdown
Closed 8 months ago
autorecon3 always rerun
Closed 8 months ago2
Built-in Local Gyrification Index (LGI) Flag
Closed 8 months ago1
msmall registration seems off
Closed 8 months ago1
fMRIPrep-next checklist
Closed 8 months ago
anat-fast-track crashing, io_spec missing fields?
Closed 8 months ago
Integrate SynthStrip?
Updated 9 months ago5
Add MSMSulc
Closed 10 months ago6
Include 3T18yoSchwartzReactN32 in Docker
Closed a year ago2
Add white FreeSurfer surface to derivatives; replace smoothwm?
Closed a year ago
WRAPPER: docker unable to find image of version 0.11.0
Closed a year ago2
smriprep unable to allocate job
Closed a year ago4
adding surface based morphometry outputs (cortical thickness, sulcal depth, folding curvature) to CIFTI-output
Closed a year ago2
Docker pushes fail on tags
Closed a year ago1
`FSSurfaceReport` MGHImage incompatibility
Closed a year ago1
smriprep errors out during autorecon2-vol due to missing lta file
Closed a year ago3
Can smriprep be used to create a custom template?
Closed a year ago2
Replace hardcoded `t1w` with `anat` for multi-modality workflows / nodes
Updated a year ago1
--output-layout bids as default for 0.10.x series
Updated a year ago
Autorecon1 Crashing
Closed 2 years ago48
Improve documentation on longitudinal option.
Updated 2 years ago1
FreeSurfer execution when both T2w and FLAIR present
Updated 2 years ago4
Surface misalignment with non-conformed freesurfer data limits the application of mri_robust_register to oblique native inputs
Closed 2 years ago
RFC: Do we want versioned docs? And do we want to maintain them ourselves?
Updated 2 years ago3
Incorporating FastSurfer to sMRIPrep as surface reconstruction option
Updated 2 years ago8
tutorial for smri
Closed 3 years ago
Issue about segmentation result with data including lesion-mask
Updated 3 years ago2
indexed_gzip.indexed_gzip.CrcError: CRC/size validation failed - the GZIP data might be corrupt
Closed 3 years ago3