Soorya19Pradeep

@mattersoflight , @ziw-liu , presented here is a sample image of prediction logged during validation on tensorboard (this is a trial with manually input weights for cross-entropy loss calculation): The...

Updates from meeting with @mattersoflight and @ziw-liu today: 1. The expression of uninfected cells is very low, so perform feature enhancement to make sure the information from the fluorescence signal...

Thanks @mattersoflight . I have added the code I was preparing to run predictions on the data: example/infection_phenotyping/test_infection_classifier.py Here is the path to the test dataset: `/hpc/projects/intracellular_dashboard/viral-sensor/infection_classification/datasets/Exp_2024_02_13_DENV_3infMarked_test.zarr` This is the...

Rebase of this branch to main branch was required due to an issue encountered with the dataloader. While training the model, the first uninfected well was only utilized and not...

The branch is ready for merging into the main branch. Please let me know if any changes are pending. Can anyone review the branch so that we can merge it?...

I have the same issue as @JohannaRahm with the inference images produced by microDL. The 2012x2012 input images (images resized on x-y registration) used for microDL inference produces 1024x1024 output...

@ziw-liu , I tried out the covnext after pulling changes on main branch. I am still getting the error. Do you know where this would be coming from? > File...

@ziw-liu , my data is 3D. Do I still use the [fix-3d-to-2d](https://github.com/mehta-lab/VisCy/tree/fix-3d-to-2d) branch? I tried the 2.2D model on main and infection_phenotying branches. Both gave me the error.

My infection annotation channel has been extended to 3D. Here is a sample dataset: `/hpc/projects/intracellular_dashboard/viral-sensor/infection_classification/datasets/Exp_2023_11_08_Opencell_infection/OC43_infection_timelapse_all_curated.zarr`

@ziw-liu , I got it working! I hardcoded the '1' in my code. Sorry about the confusion!