1 Release published by 1 person

• v3.1.0

  published Oct 29, 2024

3 Pull requests merged by 2 people

• GUI selection for SGD/RAdam Training

  #1022 merged Oct 22, 2024

• Ian coccimiglio gui radam

  #1031 merged Oct 22, 2024

• New3d

  #1030 merged Oct 21, 2024

2 Pull requests opened by 2 people

• File selection cancel logic added

  #1040 opened Nov 2, 2024

• Update README.md

  #1044 opened Nov 8, 2024

19 Issues closed by 2 people

• Can Cellpose be used to segment cell in the HE-stained images ?

  #1027 closed Nov 6, 2024

• [BUG] Cellpose training returns no masks after successful training

  #1033 closed Oct 31, 2024

• Using Cellpose for IMC data

  #1035 closed Oct 30, 2024

• [INSTALL] error

  #1032 closed Oct 30, 2024

• Calculate memory needed

  #1002 closed Oct 29, 2024

• [BUG] NET ERROR: index 1024 is out of bounds for axis 1 with size 1024

  #1004 closed Oct 29, 2024

• BUG in drawing the areas

  #961 closed Oct 26, 2024

• Using --no_norm with CLI slows down 3D segmentation[BUG]

  #898 closed Oct 26, 2024

• GPU not being used by Cellpose

  #899 closed Oct 26, 2024

• [FEATURE] Idea for the reduction of mask sizes

  #999 closed Oct 26, 2024

• [FEATURE] Stitching after making prediction

  #1013 closed Oct 25, 2024

• [BUG]Cellpose QuPath extension give error upon channel color change

  #1014 closed Oct 25, 2024

• [BUG] Size model not downloaded when using cwd as model path

  #1015 closed Oct 25, 2024

• [BUG] Z-axis disagreement for stacks taller than they are X or Y

  #1020 closed Oct 25, 2024

• [BUG]

  #1028 closed Oct 25, 2024

• [Question] Change in cellpix id when reloaded

  #1029 closed Oct 25, 2024

• [BUG] demo_images Website out of service

  #1021 closed Oct 25, 2024

• [BUG] Fail to download "older" models

  #1025 closed Oct 25, 2024

• [INSTALL]Install cyto3 in TrackMate-Cellpose

  #1024 closed Oct 25, 2024

8 Issues opened by 7 people

• segmentation of nuclei + membranes

  #1043 opened Nov 7, 2024

• [BUG] Minor: Ensure to use weights_only=True for all torch.load

  #1042 opened Nov 7, 2024

• [BUG] normalisation problem?

  #1041 opened Nov 4, 2024

• [INSTALL] How to train the model on another annotated dataset (transfer learning)

  #1039 opened Nov 1, 2024

• [BUG] Crashing during headless processing a folder of 3D z stacks

  #1038 opened Oct 31, 2024

• [BUG] Error saving flows and cellprob tif image

  #1037 opened Oct 31, 2024

• [BUG] Cellpose 3 using GPU macOS M1

  #1034 opened Oct 30, 2024

• [BUG] Different Segementation Result between GUI and Python command

  #1026 opened Oct 10, 2024

8 Unresolved conversations

Sometimes conversations happen on old items that aren’t yet closed. Here is a list of all the Issues and Pull Requests with unresolved conversations.

• [FEATURE] Output cell probability from CLI

  #1023 commented on Oct 15, 2024 • 0 new comments

• Support for 4D+t data

  #971 commented on Oct 25, 2024 • 0 new comments

• [BUG] No masks found during training

  #1017 commented on Oct 25, 2024 • 0 new comments

• [INSTALL] This plugin does not support propagateSizeHints()

  #1012 commented on Oct 25, 2024 • 0 new comments

• [BUG]: Outliers in cell segmentation points (both for ['mask'] and ['outlines'])

  #887 commented on Oct 26, 2024 • 0 new comments

• The predictions by Command line and GUI are different

  #972 commented on Oct 29, 2024 • 0 new comments

• Allow user to drop suite2p folder into GUI

  #837 commented on Oct 22, 2024 • 0 new comments

• FEATURE: ctrl-c/v to copy the selected mask into the current layer

  #1019 commented on Oct 22, 2024 • 0 new comments