Issues

• 3D Registration of Stacked Sections

  JEFworks-Lab/STalign#55 · Filter by author dontminchenit opened on Aug 21, 2025

• Package unusable in a workflow with other spatial tools due to python dependency pinning. Please update

  JEFworks-Lab/STalign#54 · Filter by author rushin682 opened on Aug 12, 2025

• CODEX and Visium Alignment

  JEFworks-Lab/STalign#53 · Filter by author rahmaqadeer opened on May 30, 2025

• Can the images be from different patients?

  JEFworks-Lab/STalign#52 · Filter by author smk5g5 opened on Apr 23, 2025

• Opt out polts and error in output

  JEFworks-Lab/STalign#48 · Filter by author Albert-biorem opened on Feb 24, 2025

• Errors in final cells of Xenium H&E Alignment tutorial: NameError for tpointsI and AttributeError for `.to_csv()

  JEFworks-Lab/STalign#47 · Filter by author albert239825 opened on Feb 19, 2025

• Non-Reproducible Results in LDDMM While Aligning Xenium Datasets

  JEFworks-Lab/STalign#45 · Filter by author qu-bit1 opened on Feb 13, 2025
  1

• The mouse CCF version as the reference

  JEFworks-Lab/STalign#44 · Filter by author SONGDONGYUAN1994 opened on Feb 13, 2025

• Parameters

  JEFworks-Lab/STalign#43 · Filter by author DruncBread opened on Feb 9, 2025

• GPU memory occupied after transformation

  JEFworks-Lab/STalign#42 · Filter by author racng opened on Jan 18, 2025

• Setting scale parameters

  JEFworks-Lab/STalign#41 · Filter by author JRS92 opened on Jan 16, 2025
  2

• Scaling fitted transform

  JEFworks-Lab/STalign#40 · Filter by author racng opened on Jan 15, 2025
  2

• LDDMM error: IndexError: index 1 is out of bounds for dimension 0 with size 1

  JEFworks-Lab/STalign#39 · Filter by author OMIC-coding opened on Dec 9, 2024
  2

• Using Multiple GPUs in build_transform

  JEFworks-Lab/STalign#38 · Filter by author dyyjenny opened on Dec 6, 2024

• How can I map my entire mouse brain MERFISH section to the Allen Brain Atlas and annotate the brain regions?

  JEFworks-Lab/STalign#37 · Filter by author kulansam opened on Dec 2, 2024
  6

• [Question] Aligning two H&E images

  JEFworks-Lab/STalign#34 · Filter by author melanieloth opened on Sep 20, 2024

• Sagittal section registration to allen brain atlas

  JEFworks-Lab/STalign#33 · Filter by author cobioda opened on Sep 11, 2024
  1

• Affine transform issue

  JEFworks-Lab/STalign#27 · Filter by author ebolotin02 opened on Jan 10, 2024
  1

• Align DAPI to blue channel of H&E

  JEFworks-Lab/STalign#25 · Filter by author ViriatoII opened on Dec 21, 2023

• registration using gene expression information

  JEFworks-Lab/STalign#20 · Filter by author common-chenlab opened on Oct 19, 2023
  5

• How to choose parameters?

  JEFworks-Lab/STalign#19 · Filter by author grst opened on Oct 19, 2023
  3