1. Using simple machine learning for image segmentation

2. A simple technique: Finding Objects (Cells) by Thresholding

3. Part 1: Using labeled data to find optimal intensity threshold
intensity map
region labels
Van Valen, D. A., Kudo, T., Lane, K. M., Macklin, D. N., Quach, N. T., DeFelice, M. M., … Covert, M. W. (2016). Deep Learning Automates the Quantitative Analysis of Individual Cells in Live-Cell Imaging Experiments. PLOS Computational Biology, 12(11), e

4. Inherent limits to intensity thresholding
pixel intensities
classified image (optimal threshold)

5. Image filters: ways to extract additional info about structure of images
Laplace filter
filtered image

6. Two axes are better than one
Adding second feature makes it easier to separate the two classes
ML algorithms can generalize to an arbitrary number of features
Laplace
intensity

7. Two axes are better than one
ground truth
classified (random forest)
classified (with Laplace)
classified (threshold only)