nipreps/nibabies

Issues

• Output non-normalized preproc if `--norm-csf` is used

  #422 opened 9 days ago by mgxd
  0

• load_ants_h5 error when using --multi-step-reg

  #420 opened 10 days ago by madisoth
  1

• Automatically infer cohort only if infant output space is requested without cohort info

  #414 opened 22 days ago by tsalo
  2

• Only T2w image

  #411 opened a month ago by seonjoo
  1

• HTML report folder structure does not work for ongoing longitudinal out of the box

  #350 opened 9 months ago by tjhendrickson
  4

• Nibabies outputs in 170k space (1.6mm resolution)

  #410 opened a month ago by moser297
  0

• Errors may be present in "successful" runs

  #392 opened 4 months ago by mgxd
  1

• Add `auto` option to `--surface-recon-method`

  #294 opened 2 months ago by mgxd
  1

• [Freesurfer] error: MatrixMultiply: m1 is null!

  #408 opened 3 months ago by lundq163
  0

• Cant get func - cifti outputs

  #354 opened 3 months ago by nbustos
  4

• T1 and T2 preproc anatomical derivatives are skull stripped for mcribs and infantfs reconstruction methods

  #397 opened 3 months ago by lundq163
  1

• SyN SDC incomplete

  #393 opened 4 months ago by mgxd
  1

• Issue finding age in months from participants.tsv for v24.0.0

  #388 opened 3 months ago by lundq163
  6

• Warnings generated by `warnings.warn` are not shown in the terminal output (?)

  #352 opened 3 months ago by scott-huberty
  4

• Alter FreeSurfer subjects to include session labels

  #288 opened 4 months ago by mgxd
  1

• Add `space-fsaverage` to `desc-reg` sphere files without space entity

  #366 opened 4 months ago by tsalo
  2

• `unstable` docker tag is lagging behind Nibabies development version

  #372 opened 4 months ago by scott-huberty
  2

• bold_MNIInfant_wf uses res-1 (1mm) template as target for BOLD resampling

  #380 opened 4 months ago by madisoth
  0

• More tests

  #378 opened 4 months ago by scott-huberty
  3

• 24.0.0rc fails with `'MNIInfant not found in SpatialReferences` if ``cifti-output`` flag not used

  #375 opened 5 months ago by scott-huberty
  4

• Write out fsnative surface files registered to dhcpAsym/fsLR space

  #367 opened 5 months ago by tsalo
  0

• Failure using nibabies: Image and mask affines are not similar enough

  #364 opened 6 months ago by kellyhi08
  8

• mri_coreg crash

  #363 opened 7 months ago by scott-huberty
  3

• Proposed change to the __repr__ method of the Derivatives class

  #348 opened 9 months ago by scott-huberty
  1

• Failure when combining confounds

  #349 opened 10 months ago by mgxd
  0

• Carpet plots for func runs in .html report

  #344 opened 10 months ago by ajdneuro
  2

• Use symmetric dhcp templates

  #346 opened 10 months ago by mgxd
  0

• "'resource_filename' is not defined" error on multi-echo dataset

  #343 opened a year ago by tsalo
  1

• Verify `derivatives` exist

  #335 opened a year ago by mgxd
  0

• nibabies fails with multiple T2 images

  #332 opened a year ago by chaselgrove
  2

• Argument order matters to nibabies-wrapper

  #331 opened a year ago by chaselgrove
  0

• T2* map not properly scaled to 2mm MNI

  #320 opened a year ago by moser297
  2

• 23.1.0 release candidate 1 version throw errors about can not find precomputed segmentation while using --surface-recon-method mcribs

  #321 opened a year ago by yanbin-niu
  1

• infantFS recon error due to "bc" not found

  #312 opened a year ago by madisoth
  0

• Beef up documentation

  #311 opened a year ago by mgxd
  0

• Mismatch in image and mask size due to change in pixel dimensions during t1w_template_wf

  #304 opened a year ago by moser297
  3

• ValueError: BinaryDilation requires a value for input 'in_file' (using MCRIBS recon w/ precomputed mask)

  #309 opened a year ago by madisoth
  0

• Allow ingress of segmentations in different spaces through --derivatives flag

  #293 opened a year ago by audreymhoughton
  0

• Allow skullstripped inputs

  #307 opened a year ago by mgxd
  0

• Distortion corrected images look distorted in the opposite direction (AP for PA acquisition)

  #254 opened a year ago by moser297
  2

• mcribs surfaces misaligned to anat after fix_surfs node

  #297 opened a year ago by madisoth
  1

• Dilated the BOLD mask input to t2smap

  #295 opened 2 years ago by madisoth
  0

• Surface Morphometrics in fsLR 32k space

  #274 opened 2 years ago by audreymhoughton
  1

• Use SBRefs when available

  #247 opened 2 years ago by mgxd
  1

• docker: failed to register layer

  #248 opened 2 years ago by anikaguha1
  2

• Change in reference frame for motion correction in single echo and multi echo data

  #253 opened 2 years ago by moser297
  0

• BIDSConflictingValuesError for entity "space" in CIFTI func derivatives

  #263 opened 2 years ago by madisoth
  0

• Output a label volume of the resampled-to-atlas subcortical ROIs

  #251 opened 2 years ago by madisoth
  0

• BOLD brain mask derivatives ("desc-brain_mask.nii.gz") are not binarized

  #245 opened 2 years ago by madisoth
  0

• Add benchmark information

  #241 opened 2 years ago by mgxd
  0