Fluidigm Cell Segmentation Forum
Anthony Colombo
4-24
Preprocessing with ImageJ
- Occurs when the tissue is sectioned and placed on slide/TMA.
- Common in different tissues
- ImageJ (https://imagej.nih.gov/ij/)
Pixel Uncertainty (Ilastik)
- well trained (left), and poorly trained (right)
- Ilastik can export these as snapshots to be analyzed in R.
Pixel Uncertainty quantification
- Ilastik uncertainity training images can be imported into R
- uncertainity can be quantified by pixel counting