Use coordinates for subtomo extraction

IsoNet-cryoET / IsoNet

Self-supervised learning for isotropic cryoET reconstruction

https://www.nature.com/articles/s41467-022-33957-8

MIT License

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Use coordinates for subtomo extraction #56

Open flng000 opened 2 months ago

flng000 commented 2 months ago

Hi guys,

Is there a possibility to pass multiple coordinates for the subtomogram extraction rather than using none or a mask (e.g. a IMOD coordinate list)? If so, how did you managed? Thanks and all the best,

Felix

procyontao commented 2 months ago

Hi,

Sorry for late response. You can extract the subtomograms for IsoNet training.

"isonet.py prepare_subtomo_star " allows you to generate subtomo star files from subtomograms in a folder.

What I used years ago to extract subtomograms with a coordinate list is "boxstartend" in IMOD