SydneyBioX/BIDCell

Issues

• Suggestion: add the choice of H&E stains to nuclei segment instead of DAPI stains

  #25 opened 3 days ago
  0

• Details of datasets

  #24 opened 9 days ago
  1

• Error Encountered During Training

  #23 opened 21 days ago
  4

• Can I also use this method if I don't have reference

  #22 opened 24 days ago
  11

• Suggestion: Use of predefined cell localisation instead of DAPI image

  #21 opened a month ago
  1

• Error: 6252 raise KeyError(f"{not_found} not in index")

  #20 opened a month ago
  4

• specify the out put folder to save the BIDCell results

  #19 opened 2 months ago
  0

• suggestions for improving the README File

  #18 opened 2 months ago
  2

• Training Step ValueError

  #17 opened 2 months ago
  9

• Connecting BIDCell matrix and cell masks

  #16 opened 3 months ago
  1

• Error in cv2.resize when using CellPos nuclei segmentation

  #15 opened 3 months ago
  2

• Using BidCell output in Xenium Ranger

  #14 opened 5 months ago
  0

• IndexError in bidcell/processing/cell_gene_matrix.py

  #13 opened 6 months ago
  1

• Question about nuclei segmentation

  #12 opened 6 months ago
  3

• how to draw cell boundaries from the output data

  #11 opened 6 months ago
  3

• semgenting_dapi using cellpose 'Nuclei' setting

  #10 opened 3 months ago
  1

• Preprocessing of single cell reference data

  #9 opened 7 months ago
  3

• Unable to generate transcripts.csv.gz and morphology_mip.ome.tif files.

  #8 opened 7 months ago
  2

• AssertionError

  #7 opened 7 months ago
  0

• Cannot run example data on Windows system

  #6 opened 7 months ago
  0

• Request for open all code especially for the reference data part

  #5 opened a year ago
  1

• Error saving model at the end of training epoch

  #4 opened 10 months ago
  4

• Expected input[3, 499, 64, 64] to have 500 channels, but got 499 channels instead

  #3 opened a year ago
  1

• Using GPU v CPU

  #2 opened a year ago
  3

• Including Cell border stain information

  #1 opened 7 months ago
  2