Process Quantom

Process images from Logos QUANTOM Tx Microbial Cell Counter

Installation

1. Install Docker on your local machine (https://docs.docker.com/get-started/get-docker/)
2. Clone the repository 'process_quantom' to your local machine

Run the code on your data

1. Copy the directories containing the images to process in the 'data' directory found in the process_quantom path
2. In your terminal go to the directory containing the 'docker-compose.yml' file
3. Run the command: 'docker compose up' (the container will be built the first time)
4. The container will run the analysis automatically on each image directory
5. The results of the analyses are saved in each image directory in the directory "DatInsights_#" (# represents date and time)
6. Move the processed directories out of the "data" directory before running the next analyses