I am dealing here with MSCs (Mesenchymal Stem Cells/ Multipotent Stromal Cells). I grow them on petri dishes 60 mm. They are stained with crystal violet afterwards. I am interested basically in two things.
The petri dish itself: How many colonies? --> Pictures taken with a customary SLR camera
Here I just want to creat a pipeline for colony counting.
Single Colonies: --> Images taken by a microscope with brightfield setting (magnification 5x)
In this case I would like to have a look on the following features of the colonies:
- colony diameter
- cell number per colony
- circularity of the colonies (colony forming)
- confluency of the colonies (dense, sparse)
Especially in the second case the pipeline seems more difficult to construct. Has anyone of you already some experiences with these and can me help out with the settings or a pipeline? I tried a pipeline with modules: LoadImage, Color to grey, Crop, Primary Objects
Thanks for your help