Re: [scipion-users] noisy 3d model, b-factor, post-processing

[Grigory S. <sha...@gm...>]

Hello Dmitry,

post-processing in relion is described in its wiki:
http://www2.mrc-lmb.cam.ac.uk/relion/index.php/Analyse_results#Getting_higher_resolution_and_map_sharpening


Did you provide a mask? Increasing B-factor (e.g., -200) strongly enhances
high resolution features including noise, so it's normal.

If your resolution is above 10A I wouldn't use B-sharpening/MTF division
altogether. Also, auto B-factor might simply not work for these cases.

Best regards,
Grigory

--------------------------------------------------------------------------------
Grigory Sharov, Ph.D.
Institute of Genetics and Molecular and Cellular Biology
Integrated Structural Biology Department (CBI)
1, rue Laurent Fries
67404 Illkirch, France
tel. 03 69 48 51 00
e-mail: sh...@ig...

On Fri, Dec 2, 2016 at 1:57 PM, Dmitry Semchonok <sem...@gm...>
wrote:

> Dear colleagues,
>
>
>
> I run the *protocol relion-post-processing* and the result model has some
> noise mainly around the center.
>
>
> The b-factor that was first set to the auto value (how to find out what
> was it precisely for the “auto” settings?)
>
>
> I set the b-factor manually -50, -100, -200
>
>
>
> The less noise was obtained with b-factor = -50
>
> How to get rid of that noise and set the correct b-factor?
>
> There is no such noise in the classification file.
>
>
>
> (K2mtf was taken from relion mrc website)
>
>
>
>
>
>
> Thank you.
>
>
>
> Sincerely,
>
> Dmitry
>
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