[3dem] Micrographs manual sorting relion3

[Jose Miguel de la Rosa Trevin]

Dear Julien,

You can use Scipion to do that.
When running movie alignment (motioncor2, unblur, xmipp3, etc) you can
active an option
to generate a thumbnail and then after CTF estimation (gctf, ctffind4, etc)
you will have a GUI (see
figure below) where you can sort by any column (estimated resoltion,
quality fit, defocus, etc)
and select/deselect micrographs and create a new subset. You can also
change to a view to see
a gallery of all thumbnails (real space micrograph) or a gallery of all
PSDs images, this also helps
to screen the micrographs quickly in some cases. If you don't want to
continue processing
inside Scipion, you could easily export micrographs + CTF (protocol 'relion
- export ctf') and then
proceed in Relion.

Please let me know if you want to give it a try and have any further
questions.

Kind regards,
Jose Miguel



> [image: image.png]
>
>
> On Thu, Nov 22, 2018 at 6:18 PM Julien Bous <
> julien.bous at etu.umontpellier.fr> wrote:
>
>> Dear All,
>>
>> I wish to realise a sorting of my realigned micrographs in Relion3, in
>> order to get rid of broken ice area. I wanted to do it in the subset
>> selection mode but I was not able to set a lowpass filter in this mode
>> and it was challenging to asses the micrographs quality. I thougt to do
>> it in the manual picking mode or manually, with eman , but in this way I
>> can just display the micrographs one by one and it'll be very time
>> consuming. Therefore if anyone  knows how to realise this task
>> effectively I'll be glad to know your opinion.
>>
>> Cheers,
>>
>> Julien
>>
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>> 3dem at ncmir.ucsd.edu
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>>
>
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