- Developed for: Rachel
- Team: Prochiantz
- Date: January 2024
- Software: Fiji
3D images taken with a x25 objective on the Zeiss W1 spinning-disk microscope
4 channels:
- CSU_405: DAPI
- CSU_488: Sox9
- CSU_561: CFos
- CSU_642: PV
- Detect Sox9 and PV cells with Stardist
- For each channel, compute background noise as median intensity value of Z projection over min intensity
- For each cell, compute its volume and background-corrected intensity in its respective channel and in the CFos channel
- 3DImageSuite Fiji plugin
- Stardist "StandardFluo.zip" model
Version 1 released on January 24, 2024.