I recently thought about a few possible improvements for CS.
Micrograph Junk Detector Before Particle Picking
Is it possible to use the Micrograph Junk Detector prior to particle picking, so that only the qualified or sorted areas are considered for picking? I tested running the Micrograph Junk Detector using the patch CTF results as input, and it successfully sorted the micrographs and identified junk regions. My idea is to apply these results as a filter during particle picking, so that only the accepted areas are picked from, and junk regions are excluded.
Using All Ab-initio Output Volumes in Heterogeneous Refinement
Possibility of using all output volumes generated from the Ab-initio step (output single tab) as input for volume tab in Heterogeneous Refinement.
Hi @Dmitry, thank you for the suggestions! If I’m understanding what you’re looking for correctly, you may already be able to do this in CryoSPARC.
This is actually an indended use case of the junk detector. Say you run Patch CTF as J3. You could run Junk Detector (J4) and particle picking (J5) at the same time. Then, when both were complete, if you use Junk Detector again but provide the micrographs from J4 and the particles from J5, the new job (J6) will re-use the existing annotations from J4 to reject particles without re-processing the micrographs.
If you quick-build a Heterogeneous Refinement job from an Ab Initio Reconstruction (by either clicking the ... button or right-clicking the job card, then selecting “Build Heterogeneous Refinement”, all of the volumes and particles will automatically be connected to the new job.
