Hello,
I have followed the guide provided in the cryosparc tools documentation for particle picking with crYOLO. However, I am encountering an issue when trying to inspect my particle picks. Specifically, I am unable to view the power histogram or any picked particles on my micrographs. I am wondering if anyone has experienced similar issues and if there are any solutions to this problem?
I was playing around with this and had the same issue, namely not being able to interactively select particles in the Inspect Particles Job.
To work around this I modified the provided script to set values for both “pick_stats/ncc_score” and “pick_stats/power” which then brought up the heat map in the interactive Inspect Particles Job. The value I assigned to “pick_stats/ncc_score” and “pick_stats/power” was the figure of merit provided by cryolo which I took from “boxfiles/CRYOSPARC/cryosparc.star”. Probably it would be smarter to get values from the CBOX files but I did not spend time to parse these files.
Below I paste the code I used but it is not tested so use with caution. I also added a tqdm progress bar so you have to have tqdm installed in your conda enviroment,
Thank you for reporting and apologies for the delay. We’ve made a fix to Inspect Picks such that it is able to display particles even when the input dataset does not contain pick_stats. This will be released in the next version of CryoSPARC.
Thank you for that. I tried it myself and it works great.
Also, I think that the merit numbers are the same between CBOX and cryosparc.star, so It might not be necessary to parse CBOX files.