battyone / cv4microscopy

Some simple computer vision code for analyzing data from automated time-lapse microscopy

CV4Microscopy

Some simple computer vision code for analyzing data from automated time-lapse microscopy

This code was used as part of the game assay pipeline. Data Availability: If you're interested in the raw images used there then due to the large file sizes please reach out by email so we can coordinate.

Early versions of some of this code appeared in the MathOnco repository.

Related blog posts:

1. Choosing units of size for populations of cells: justifying fluorescent area as a reasonable metric for size of cell populations.
2. Counting cancer cells with computer vision for time-lapse microscopy: basic computer vision (including how to get OpenCV up and running) and the first commit of FluorescentArea.py.
3. Population dynamics from time-lapse microscopy: scraping the archive directories from time-lapse microscopy to make plots of dynamics and estimate growth rates. First commit of ScrapeTLM.py