Issues

• Licensing clarification for PAM50 data files in release r20250730

  spinalcordtoolbox/PAM50#53 · Filter by author yironuv-hub opened on Aug 4, 2026

• Histology atlas has inconsistent origin

  spinalcordtoolbox/PAM50#52 · Filter by author mguaypaq opened on Nov 18, 2025

• Add label for LSE

  spinalcordtoolbox/PAM50#51 · Filter by author jcohenadad opened on Sep 18, 2025
  12

• Discussion about the smoothness of the GM mask based on the AMU15 atlas

  spinalcordtoolbox/PAM50#50 · Filter by author jcohenadad opened on Sep 15, 2025
  4

• Update cord segmentation based on contrast-agnostic model

  spinalcordtoolbox/PAM50#48 · Filter by author jcohenadad opened on Sep 8, 2025

• Regenerate the lumbar and top cervical GM mask

  spinalcordtoolbox/PAM50#45 · Filter by author jcohenadad opened on Sep 3, 2025
  14

  

• Consider scaling registered AMU GM mask to 1.0

  spinalcordtoolbox/PAM50#43 · Filter by author jcohenadad opened on Aug 29, 2025
  

• Registration approaches on 7T MP2RAGE using disc levels and rootlets_t2 segmentations

  spinalcordtoolbox/PAM50#37 · Filter by author Nilser3 opened on Jun 24, 2025
  6

• Improve spine segmentation using totalspineseg ?

  spinalcordtoolbox/PAM50#36 · Filter by author tletut0ur opened on Jun 3, 2025
  3

• PAM50_atlas_3[2-3].nii.gz have pixels outside the cord

  spinalcordtoolbox/PAM50#33 · Filter by author valosekj opened on Apr 2, 2025
  

• Imperfect overlap of WM and GM mask, especially in in the lower thoracic and lumbar levels

  bug
  Bug

  spinalcordtoolbox/PAM50#32 · Filter by author jcohenadad opened on Jan 24, 2025
  16

• Update README with recently added labels?

  spinalcordtoolbox/PAM50#30 · Filter by author valosekj opened on Feb 6, 2024

• Is PAM50_label_spinal_levels.nii.gz used?

  spinalcordtoolbox/PAM50#28 · Filter by author jcohenadad opened on Oct 19, 2023
  3

• Modify/Cleanup template files after PAM50_cord is updated

  spinalcordtoolbox/PAM50#25 · Filter by author jcohenadad opened on Sep 22, 2023
  1

• Answer forum post about C1 level now covered

  spinalcordtoolbox/PAM50#24 · Filter by author jcohenadad opened on Sep 22, 2023

• Update WM and GM atlas to match the modified PAM50_cord.nii.gz file

  spinalcordtoolbox/PAM50#23 · Filter by author jcohenadad opened on Sep 22, 2023

• Inconsistent X-Y location of labels for PAM50_label_body.nii.gz

  enhancement
  spinalcordtoolbox/PAM50#22 · Filter by author jcohenadad opened on Aug 9, 2023
  1

  

• Add 7T T2*w and qT1 in-vivo template + atlas

  spinalcordtoolbox/PAM50#13 · Filter by author Nilser3 opened on Jun 23, 2023
  1

• Intervertebral foramen to caudal and rostral rootlets to update spinal levels: limitations

  spinalcordtoolbox/PAM50#12 · Filter by author sandrinebedard opened on May 1, 2023
  1

• aligning with BIDS

  spinalcordtoolbox/PAM50#11 · Filter by author CPernet opened on May 1, 2023
  4

• Linear scaling : potentially inaccurate positioning of individual spinal levels

  spinalcordtoolbox/PAM50#10 · Filter by author sandrinebedard opened on Apr 3, 2023