Issues

• COMMOT 0.0.3 incompatible with NumPy >= 2.0 (np.Inf removed)

  zcang/COMMOT#43 · Filter by author PFoley-Seq opened on Apr 26, 2026

• Can COMMOT scores be compared across samples? Differential testing of COMMOT scores?

  zcang/COMMOT#42 · Filter by author AmosFong1 opened on Jan 14, 2026

• How to export COMMOT results to CellChat-style C–C–L–R–p.val–score table

  zcang/COMMOT#41 · Filter by author Zijiang8 opened on Jul 31, 2025

• How can the method be used to compare CCIs between different ST slices from diseased and normal tissue?

  zcang/COMMOT#40 · Filter by author Mark-wt opened on Jun 20, 2025
  1

• group_communication_direction: Keys = None having an error

  zcang/COMMOT#39 · Filter by author parkjooyoung99 opened on Feb 2, 2025

• the stream by grid is outside of grid and is there parameters to adjust for this?

  zcang/COMMOT#38 · Filter by author brainfo opened on Aug 29, 2024

• How to input a customized distance matrix?

  zcang/COMMOT#37 · Filter by author duzc-Repos opened on Jul 11, 2024

• visium hd support

  zcang/COMMOT#36 · Filter by author revolvefire opened on Jul 8, 2024
  2

• TypeError: _detect_vcs() missing 2 required positional arguments: 'expected_vcs' and 'path'

  zcang/COMMOT#35 · Filter by author uni987 opened on Jun 5, 2024
  6

• Updated the requirements.txt

  zcang/COMMOT#33 · Filter by author stear-alec opened on Apr 24, 2024

• How does commot calculates the number of L-R

  zcang/COMMOT#31 · Filter by author caiquanyou opened on Mar 15, 2024
  3

• COMMOT in Seurat object

  zcang/COMMOT#30 · Filter by author nsdelablancac opened on Feb 5, 2024
  2

• error' single positional indexer is out-of-bounds' when using 'ct.tl.spatial_communication'

  zcang/COMMOT#29 · Filter by author yao50985098 opened on Jan 19, 2024
  1

• Why do you solve 4-dimensional matrix P in four problems?

  zcang/COMMOT#28 · Filter by author YCH-bioinf opened on Dec 14, 2023

• How does commot calculates distance on visium data

  zcang/COMMOT#27 · Filter by author r-melo opened on Nov 28, 2023

• orientation of images in cell_communication output

  zcang/COMMOT#26 · Filter by author archanabhardwaj opened on Nov 23, 2023
  2

• Usage of cell2location results in COMMOT for spatial interaction

  zcang/COMMOT#25 · Filter by author archanabhardwaj opened on Nov 23, 2023
  1

• Crop and zoom into the sample for plot_cell_communication

  zcang/COMMOT#24 · Filter by author kuang-da opened on Nov 21, 2023

• Questions about slow running time

  zcang/COMMOT#23 · Filter by author HelloWorldLTY opened on Oct 27, 2023

• Module 'commot' has no attribute 'pp'

  zcang/COMMOT#22 · Filter by author sykesmarc opened on Oct 10, 2023

• legend and image store in two separate files

  zcang/COMMOT#19 · Filter by author YuyanRuan opened on Aug 14, 2023

• Comparing cell-type-level communication scores across samples

  zcang/COMMOT#17 · Filter by author kestrel614 opened on Jul 3, 2023
  6

• tradeseq is not working

  zcang/COMMOT#16 · Filter by author bernard2012 opened on Jun 28, 2023
  2

• Questions about dis_thr

  zcang/COMMOT#15 · Filter by author ysbioinfo opened on Jun 27, 2023

• ct.tl.communication_deg_detection error:Not all gene IDs are present in the models object.

  zcang/COMMOT#14 · Filter by author zwdylj opened on Jun 15, 2023
  4