Hi everyone, I collected 20,000 micrographs on Krios, and for the data analysis I tried to train Topaz, but apparently I have to split the micrographs into smaller batches. Could you guys help me out with how I can apply the model that I got from one of the topaz train job apply to the rest of the micrographs? And one follow-up question how can I interpret a well-trained Topaz to continue with?
I think topaz limit is something around 8-10k images. Here use the “exposure sets tool” job, split 3 batches size 7k
Topaz train = train up the model
Topaz extract = use the model to pick particles (its a quick action, right click on topaz train)
Generally use the topaz train (50-100 images) then extract right after on that train job and check how it did with the extract job vs what it was trained on. Adjust parameters accordingly. Multiple jobs in parallel to try different conditions.
Hi thank you for the response. I did split into 4 batches each 5000 micrograph and trained topaz for each and extract it. I was wondering if I can apply the model from one of them and if I can how? Because I tried to apply all of the micrograph one the topaz extract. it have me error
You’ll need multiple topaz extract jobs, the extract will only work on up to say 9,000 images put in or will error out. Perhaps newer versions of topaz don’t have this. You can use whichever of the models looks best. With your current failed job clone it 4 times and run on each of your 5k batches, then you can combine the 20k images together with an inspect job
Thank you so much I’ll do it.