Hi,
CTFRefine works on extracted particles, not original
micrographs. So, the pixel size in the micrograph
does NOT matter at all.
In contrast, Bayesian Polishing works on original movies,
not extracted particles. Thus, the original pixel size DOES matter.
Here, you need three pixel sizes; the movie pixel size (before binning),
the micrograph pixel size (after binning), the extracted
particle pixel size (after down-sampling).
Best regards,
Takanori Nakane
> Hi all,
>
> I want to do per-particle CTF parameter fitting within Relion3 and was
> wondering how Relion handles the pixel size when it differs between the
> particles and the original micrographs. In my case the particles are
> bin2 compared to the micrographs. In 'relion_ctf_refine' only one pixel
> size can be be specified, which is by default read from the STAR file
> which would mean it uses the particle pixel size (which would be wrong
> in my case).
>
> Does Relion3 internally read the actual micrograph pixel size from the
> header or do I have to overwrite the particle pixel size by specifying
> the micrograph pixel size (as the actual particle pixel size should not
> matter for the parameter fitting, right)?. Thanks.
>
> Cheers,
>
> Simon
>
> --
> Simon Fromm
> MCB, QB3
> Postdoc, Hurley Lab
> UC Berkeley
> 360 Stanley Hall
> Berkeley, CA 94720
>
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