EMAN2 vs EMDB FSC calculation

[Jacob Croft]

Hello,

I recently noticed that when comparing (unmasked) FSCs plotted by EMAN2 vs calculated with the half maps on the EMDB web server (https://www.ebi.ac.uk/emdb/validation/fsc/) I get different results.

I have attached screenshots of both plots. As you can see, there is a bump in the FSC but it does fall down afterwards in the EMAN2 FSC, whereas in the EMDB FSC it never appear to dip back down.

Could you please help me interpret these results? I am worried this will cause a problem during submission.

Best,

Jake Croft

University of Washington

[Steve Ludtke]

I believe the EMDB server will use the masked 1/2 volumes for the FSC calculation, whereas, unless you applied the mask, the EMAN2 comparison is probably unmasked?

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<EMDB FSC.png><EMAN2 FSC.png>