Automated Cell Counting from mobile camera
My lab needs cell counts for CyTOF and other assays. We generally use our MACSQuannt flow cytometer for cell counts. However, it sometimes breaks, or may be in use. In this case we manually count using a hemocytometer and microscope. As a fun side project, I've worked on automating this for speed, particulalry useful with many samples.
- Thawed mouse spleen cells
- Serial dillutions
- Loaded hemocytometer
- Took iPhone pictures through microscope eye piece
- Labeled using Roboflow
- Trained with Google Collab
orig image -> downsize to 416x416 -> yolov5 to label counting square -> crop original image to counting square -> downsize 1024x1024 -> yolov5 to count cells
- Create mobile app to eliminate transfer to desktop, would probably check OnePetri first for guidance
- Currently only runs from anaconda prompt, something to do with torchvision, haven't figured out how to run in command prompt
- Labels: could add trypan blue dead cell detection, detection of abnormal shapes, clumps, ect
