Issues

• IndexError in whitened_matched_filter() with OpenCV 5

  flatironinstitute/CaImAn#1586 · Filter by author eeshaanjum opened on Sep 21, 2026

• Missing closing bracket SyntaxError

  flatironinstitute/CaImAn#1582 · Filter by author sstucker opened on Jul 3, 2026
  3

• Limited correction of fast non-uniform motion with CaImAn piecewise-rigid motion correction

  flatironinstitute/CaImAn#1580 · Filter by author D3R3KDM opened on Jun 12, 2026
  6

• x_shifts_els and y_shifts_els are swapped

  flatironinstitute/CaImAn#1579 · Filter by author ethanbb opened on Apr 17, 2026

• spikepursuit.py syntex error

  flatironinstitute/CaImAn#1577 · Filter by author bobqianic opened on Mar 27, 2026

• Binary closing in threshold_components operates on spatially downsampled movie without downsampling se only for corr_pnr

  flatironinstitute/CaImAn#1575 · Filter by author ethanbb opened on Mar 4, 2026

• estimates.save_NWB() fails

  flatironinstitute/CaImAn#1574 · Filter by author katonage opened on Feb 26, 2026

• nrg contour pixel sort order - dealing with ties

  flatironinstitute/CaImAn#1570 · Filter by author ethanbb opened on Feb 17, 2026
  2

• [Legacy v1.9.16] evaluate_components crashes with TypeError when using seeded initialization (Ain) and only_init=True

  flatironinstitute/CaImAn#1569 · Filter by author LinxiuZeng opened on Feb 11, 2026

• VolPy Mask_RCNN doesn't work

  flatironinstitute/CaImAn#1567 · Filter by author bobqianic opened on Feb 5, 2026
  13

• Hardware recommendations for running CaImAn on 2P datasets

  flatironinstitute/CaImAn#1561 · Filter by author annegeorge12 opened on Jan 27, 2026
  3

• Feature Suggestion: Interactive CNMF Debug Stage Viewer with Napari

  flatironinstitute/CaImAn#1556 · Filter by author sheergalor opened on Jan 14, 2026
  1

• Saved movie looks completely black

  flatironinstitute/CaImAn#1553 · Filter by author vambrosi opened on Dec 25, 2025
  4

• demo_pipeline cannot detect my neurons

  flatironinstitute/CaImAn#1552 · Filter by author harshidapancholi opened on Dec 22, 2025

• ImportError: numpy.core.multiarray failed to import (auto-generated because you didn't call 'numpy.import_array()' after cimporting numpy; use '<void>numpy._import_array' to disable if you are certain you don't need it)

  flatironinstitute/CaImAn#1550 · Filter by author bpavie opened on Dec 17, 2025
  4

• Kernel keeps dying when I run cnmf_refit.estimates.evaluate_components()

  flatironinstitute/CaImAn#1544 · Filter by author nikolaswalteros opened on Nov 19, 2025
  12

• The error of running cnm_online.fit_online();

  flatironinstitute/CaImAn#1541 · Filter by author he599933-ui opened on Nov 10, 2025
  2

• CaImAn with manual seed - bug in reading dimensions?

  flatironinstitute/CaImAn#1540 · Filter by author manuelbettencourt-cpu opened on Nov 6, 2025
  5

• banding artifact

  flatironinstitute/CaImAn#1537 · Filter by author vkonan opened on Oct 21, 2025
  6

• Kernel crashing while evaluating componenets CNMF

  flatironinstitute/CaImAn#1536 · Filter by author wildtulipan opened on Oct 15, 2025
  27

• CNMF-E not segmenting out visually obvious cell ROIs

  flatironinstitute/CaImAn#1492 · Filter by author camilledonoho opened on Apr 10, 2025
  1

• apply_shifts_movie: Memory mapping block not generalized for 3D movies?

  flatironinstitute/CaImAn#1482 · Filter by author rcalfredson opened on Mar 5, 2025
  10

• Bad initialization, controlling component size/shape

  flatironinstitute/CaImAn#1466 · Filter by author FlynnOConnell opened on Feb 12, 2025
  3

• IndexError in demo_online_cnmfE.ipynb in cnm_online.fit_online()

  flatironinstitute/CaImAn#1461 · Filter by author ZaynZh opened on Feb 7, 2025

• error：Singular matrix

  flatironinstitute/CaImAn#1453 · Filter by author GongsunZhuoyue opened on Jan 21, 2025
  2