pwsAI 0.1.2

A GUI for AI segmentation of cell imagery.

Welcome to PWS_AI

This code is incomplete in that the gui is not completely finished. Coming up on the gui is the ability to check the results for the threshold so the segmentation is optimized by the user before going to check it on pwspy analysis software.

As it stands, you will go through 5 main steps.

Step 0) Run analysis on dataset of interest, that means running it on the pws analysis software

Step 1) Select folder with cell data where you just ran your analysis (same way its done on the pwspy software)

Step 2) Access rms images from analysis. This is done automatically when you click the button "Get RMS Images"

Step 3) Use PWS_AI to generate the ROIs automatically and save them as TIF File in Corresponding Folder

Step 4) Conver the PWS_AI output into the pwspy compatible format. Done by clicking "Push ROI TO PWSPY"

Once this is done you can go to the pws analysis software where you can now use the AI generated ROIs. This is a beta version and not ready for release but thank you for testing it out!

• Nico 6/15/23

Building

PIP can be used to build a "wheel" for distribution by navigating to the root directory (where "setup.py" is located) and running python -m build. The produced files will be placed into the "dist" folder. You can distribute the .whl file yourself and install using PIP or you can upload the .whl to the PyPi repository online for easy download access (pip install pwsAI). To upload to PyPi you will need "twine" (pip install twine) and you will need to configure twine with the proper credentials to log into your PyPi account. Then upload with python -m twine upload ./dist/*.

Once pwsAI has been installed you can run the GUI either by running python -m pwsAI or by using the PwsAiGui alias.