/QuPath_PAS_Intestine

Primary LanguageGroovy

QuPath_PAS_Intestine

  • Developed for: Céline
  • Team: Espeli
  • Date: August 2022
  • Software: QuPath

Images description

2D images of intestine sections taken with a slide scanner

Plugin description

  • Perform color deconvolution
  • Detect the tissue contour and holes with a pixel classifier
  • Detect cells in the tissue with Stardist

Dependencies

  • QuPath pixel classifier named intestine.json
  • Stardist QuPath extension + dsb2018_heavy_augment.pb model

Version history

Version 1 released on August 5, 2022.