TIO-IKIM/CellViT

Issues

• Data preprocessing error

  #71 opened a month ago by niuhulu-rui
  1

• Compatibility of `cytoDArk0` Nissl-stained histological PNG patches with CellViT

  #73 opened a month ago by shubhankar-git
  6

• Issue with VIT-SAM-H weights during inference on fold1

  #75 opened a month ago by CYYJL
  1

• Question regarding the batch size

  #74 opened 2 months ago by won5830
  0

• IncompatibleKeys warning when replicating PanNuke experiment

  #72 opened 2 months ago by schoonhovenrichard
  2

• Cannot use cucim for patch extraction with ndpi files

  #70 opened 2 months ago by OliS1311
  1

• Regarding the issue of inferring the pannuke dataset using a pre-trained model.

  #69 opened 2 months ago by xinxiaoxiong
  1

• cell_count.csv & types.csv

  #68 opened 3 months ago by happywt
  1

• UMAP of CellViT

  #62 opened 2 months ago by Liruieat
  1

• 20x Scale Bugs

  #55 opened 5 months ago by KompressorSC
  6

• Training problem met: " if scale_min > scale_max: TypeError: '>' not supported between instances of 'NoneType' and 'NoneType' "

  #67 opened 3 months ago by LEZHOU26
  0

• Data output clarification

  #66 opened 3 months ago by linatakemaru
  0

• plot_results() function in "cell_segmentation/inference /inference_cellvit_experiment_pannuke.py"

  #60 opened 4 months ago by PingjunChen
  0

• Feedback Regarding the Bug that Causes Server Freeze When Predicting Larger Images

  #65 opened 3 months ago by name-used
  2

• Pip failed when using environment.yml

  #64 opened 3 months ago by linatakemaru
  4

• prepare_pannuke doesn't make types.csv

  #63 opened 4 months ago by donniekramer8
  1

• pydantic validation errors

  #61 opened 4 months ago by Lxltxpku
  1

• ROI Support

  #52 opened 4 months ago by KompressorSC
  3

• Generate cell contours for the three folds of the Pannuke dataset

  #58 opened 4 months ago by CCSSMP
  1

• Results of Inference

  #59 opened 4 months ago by mdsatria
  1

• edge_information["edge_patches"] can be None in cell_detection.py

  #56 opened 5 months ago by PingjunChen
  1

• Dockerfile may be of use

  #57 opened 5 months ago by PingjunChen
  1

• Do you find the training unstable for ViT-S based encoders?

  #53 opened 5 months ago by swarajnanda2021
  2

• Cell type label

  #54 opened 5 months ago by JiawenChenn
  1

• three-fold cross-validation

  #51 opened 5 months ago by CYYJL
  1

• Train with one nuclei type

  #50 opened 6 months ago by vadori
  5

• Docker Image progress

  #29 opened 10 months ago by tomvars
  2

• Error report for cellvit_cpp_net.py

  #49 opened 7 months ago by won5830
  2

• Comparison to PLUTO paper?

  #48 opened 7 months ago by cgebbe
  1

• Issue with downsampling

  #47 opened 7 months ago by pkeller00
  3

• About nuclear localization

  #46 opened 7 months ago by CYYJL
  0

• cell_detection_mp looking for files that don't exist

  #45 opened 8 months ago by bendmartin
  1

• XML annotations support

  #44 opened 8 months ago by thaomaidang
  0

• cannot location any cell

  #43 opened 8 months ago by RNA429
  6

• Distributed training in CellViT

  #42 opened 8 months ago by CYYJL
  1

• CoNSeP embedding analysis code

  #28 opened a year ago by EmanuelSoda
  1

• MuNoSeg data set execution code

  #41 opened 9 months ago by CYYJL
  6

• How to get model prediction for a single pannuke image?

  #37 opened 10 months ago by neoyinzhanghan
  2

• Run Inference on CPU

  #40 opened 10 months ago by mzhoufulai
  1

• Application to non-contiguous patches

  #39 opened 10 months ago by florianbuettner
  1

• Predicting on 40x slides using 20x model

  #34 opened a year ago by bgginley
  5

• Can't reproduce the results of your paper

  #36 opened a year ago by ziwei-cui
  4

• When performing inference on the MoNuSeg dataset, the following code will ignore some regions of a image.

  #35 opened a year ago by windygoo
  2

• I have sent an email to you, please check it.

  #33 opened a year ago by windygoo
  0

• eval_every must equal to 1

  #32 opened a year ago by windygoo
  1

• How to calculate the STD metrics shown in Table 3 of your paper?

  #31 opened a year ago by windygoo
  4

• Tiled prediction does not return proper results for all tiles

  #30 opened a year ago by JLrumberger
  25

• The results dir is lost.

  #27 opened a year ago by windygoo
  1

• How about the segmentation performance of CellViT-SAM-H with CPP-Net decoder?

  #26 opened a year ago by windygoo
  1

• Question about the bPQ metric.

  #25 opened a year ago by windygoo
  3