Issues

• Issues with Exporting to Xenium Explorer

  EliHei2/segger_dev#134 · Filter by author VikramGanesanjs opened on Feb 26, 2026
  3

• Installation issue

  EliHei2/segger_dev#131 · Filter by author andrewjkwok opened on Jan 20, 2026
  5

• High memory and runtime requirements when adding scRNA-seq data

  EliHei2/segger_dev#130 · Filter by author asmariyaz23 opened on Aug 28, 2025
  4

• Error during segment -- cudaErrorIllegalAddress

  EliHei2/segger_dev#127 · Filter by author pzumbo opened on Aug 11, 2025
  4

  

• CUDA error when running predictions without GPU

  EliHei2/segger_dev#126 · Filter by author LouisK92 opened on Aug 6, 2025
  7

• Missed requirements

  EliHei2/segger_dev#124 · Filter by author mossishahi opened on Aug 5, 2025
  1

• Spatialdata and dask Comatibility

  EliHei2/segger_dev#123 · Filter by author mossishahi opened on Aug 5, 2025
  1

• [BUG] Errors with Dataset Creation

  EliHei2/segger_dev#122 · Filter by author PietroD opened on Jul 31, 2025
  1

  

• [BUG] Seg2Explorer

  EliHei2/segger_dev#121 · Filter by author EliHei2 opened on Jul 28, 2025
  

• [Error] Running seg2explorer

  EliHei2/segger_dev#120 · Filter by author jpark27 opened on Jul 28, 2025
  6

• Error when running seg2explorer

  EliHei2/segger_dev#119 · Filter by author HarryZhang1224 opened on Jul 20, 2025
  4

  

• Error during the prediction of segmentation

  EliHei2/segger_dev#117 · Filter by author mossishahi opened on Jul 1, 2025
  5

• [BUG] Error preprocessing sample.save

  EliHei2/segger_dev#116 · Filter by author ccruizm opened on Jun 25, 2025
  3

  

• Question about x_min, x_max in MerscopeSample().load_transcripts()

  EliHei2/segger_dev#115 · Filter by author Penguinayee opened on Jun 11, 2025
  2

• [BUG] IndexError: index out of range in self

  EliHei2/segger_dev#114 · Filter by author marzaidi opened on Jun 5, 2025
  

• [BUG] XeniumSample - No attribute embeddings_dict, missing packages installation

  EliHei2/segger_dev#112 · Filter by author Lisamrshhsr opened on Jun 4, 2025
  

• Integrate output with spatialdata workflows

  EliHei2/segger_dev#111 · Filter by author christophechu opened on May 22, 2025

• [BUG] 'qv_column' is not defined

  EliHei2/segger_dev#110 · Filter by author MIC0001 opened on May 12, 2025
  1

  

• transcript assignment fails to match nuclei boundaries

  EliHei2/segger_dev#109 · Filter by author xu-ziwei opened on May 12, 2025
  2

• Question about how segger construct the negative edge and how did segger use the prior segmentation

  EliHei2/segger_dev#104 · Filter by author clwan opened on Apr 24, 2025

• [BUG] NameError: name 'XeniumSample' is not defined

  EliHei2/segger_dev#98 · Filter by author marzaidi opened on Apr 12, 2025
  1

  

• Low speed with 5k genes

  EliHei2/segger_dev#97 · Filter by author mossishahi opened on Mar 31, 2025
  5

  

• runtimeError when training model from Xenium data

  EliHei2/segger_dev#95 · Filter by author elo-nsrb opened on Mar 25, 2025
  2

  

• KeyError in DataLoader when (tx, belongs, bd).edge_label is missing for some samples

  EliHei2/segger_dev#94 · Filter by author mossishahi opened on Mar 24, 2025
  2

  

• 2D vs. 3D segementation

  EliHei2/segger_dev#93 · Filter by author Zach-Sten opened on Mar 22, 2025