MouseLand/cellpose

Issues

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

  #1026 opened 3 months ago by HaofeiGe
  3

• segmentation of nuclei + membranes

  #1043 opened 2 months ago by Kaltzisp
  0

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

  #1042 opened 2 months ago by ashishUthama
  0

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

  #1027 opened 2 months ago by februaryfang
  3

• [BUG] normalisation problem?

  #1041 opened 2 months ago by TomPJWyatt
  0

• [BUG] Cellpose 3 using GPU macOS M1

  #1034 opened 2 months ago by AlabC
  9

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

  #1038 opened 2 months ago by derekthirstrup
  2

• Using Cellpose for IMC data

  #1035 opened 2 months ago by antopHU
  2

• [BUG] Error saving flows and cellprob tif image

  #1037 opened 2 months ago by derekthirstrup
  0

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

  #1039 opened 2 months ago by AyaMohamedS
  0

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

  #1033 opened 2 months ago by eschbachj
  7

• [INSTALL] error

  #1032 opened 2 months ago by marywhitman
  2

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

  #1004 opened 2 months ago by FranJGonCal
  9

• Calculate memory needed

  #1002 opened 2 months ago by laurend
  3

• [FEATURE] Idea for the reduction of mask sizes

  #999 opened 2 months ago by XylotrupesGideon
  6

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

  #1012 opened 3 months ago by chen000701
  2

• [FEATURE] Stitching after making prediction

  #1013 opened 2 months ago by CheLamVien
  1

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

  #1014 opened 2 months ago by TechnoBear1000
  1

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

  #1015 opened 2 months ago by sea-shunned
  1

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

  #1020 opened 2 months ago by outofculture
  1

• [BUG]

  #1028 opened 2 months ago by LukasOldenburg
  1

• [Question] Change in cellpix id when reloaded

  #1029 opened 2 months ago by knowblesse
  1

• [BUG] demo_images Website out of service

  #1021 opened 2 months ago by jkjkiiiii
  1

• [BUG] Fail to download "older" models

  #1025 opened 2 months ago by romainGuiet
  1

• [INSTALL]Install cyto3 in TrackMate-Cellpose

  #1024 opened 2 months ago by sparkefish
  1

• [BUG] No masks found during training

  #1017 opened 3 months ago by nicolehmr
  1

• [FEATURE] Output cell probability from CLI

  #1023 opened 3 months ago by cam-nowell
  0

• [FEATURE] maximum X,Y, Diameters, and ROIs file exported as a simple CSV

  #1016 opened 3 months ago by anas-masood
  0

• [FEATURE]Segmentation using transcripts density

  #1009 opened 4 months ago by marsdenl
  2

• [BUG] Error in OpenCV when using CellposeDenoiseModel

  #990 opened 4 months ago by ABCarvalho
  4

• [BUG]In windows ,I can not save outlines as.zip archive of ROI files for imajej

  #1006 opened 4 months ago by bobonannan
  2

• plant cell segmentation

  #1010 opened 4 months ago by gianmore
  1

• [BUG] model.eval with CPU returns None if insufficient memory

  #991 opened 5 months ago by nick-youngblut
  4

• [FEATURE] Hosting a custom Cellpose model under GCP Vertex AI

  #976 opened 4 months ago by keesh0
  1

• [BUG]The pre-trained model of cellpose3 cannot be downloaded

  #980 opened 4 months ago by xiaotaiyangcmm
  2

• [BUG] Invert after intensity normalisation

  #982 opened 4 months ago by qin-yu
  1

• Training denoise model

  #984 opened 4 months ago by walkeraw2002
  1

• Problem Opening Cellpose: ModuleNotFoundError: No module named 'cv2.cv2'

  #985 opened 4 months ago by hmapodac
  1

• [BUG] TypeError for channels=None in model.eval for multichannel image stacks

  #1007 opened 4 months ago by macromeer
  4

• [BUG] No activity on Cellpose.org when uploading images

  #986 opened 4 months ago by jonnybravo-git
  1

• [BUG] cellpose.org website not responding

  #987 opened 4 months ago by hieliz
  1

• [BUG] train_labels_files not passed to _process_train_test() in `cellpose.train`

  #989 opened 4 months ago by delnatan
  2

• [BUG] Regarding the training function under `cellpose.train.train_seg`

  #992 opened 4 months ago by anwai98
  2

• How to run a batch with the new features of Cellpose 3 ?

  #996 opened 4 months ago by gabriel5222
  1

• [BUG]

  #997 opened 4 months ago by drosi24
  1

• cellpose train size ValueError: train data and labels not same length

  #998 opened 4 months ago by hahia
  1

• [BUG]Regarding the function under dynamics._extend_centers_gpu

  #1001 opened 4 months ago by Pazen-ai
  3

• [FEATURE] Request for Feature: Visualize Training Curves for Human-in-the-Loop Models

  #1005 opened 4 months ago by piliamei
  1

• [BUG] 'CellposeModel' object has no attribute 'torch'

  #1000 opened 4 months ago by cliandouble08
  1

• [BUG] Fixed: numpy 1.x cannot be run in numpy 2.0.0

  #983 opened 5 months ago by arthursw
  1