Hi,
> Have you found per mic scale/B-factor estimation useful so far?
In general, the improvement is very tiny if any.
It pushed the highest-resolution apoferritin from JEOL CryoARM300
(EMPIAR-10248, the one in the start-up screen) a bit.
Best regards,
Takanori Nakane
> Have you found per mic scale/B-factor estimation useful so far? I didn’t se
> e it mentioned in the 3.1 preprint, but it seems like it would be useful
whe
> re the beam intensity is fluctuating (e.g. with FEG tip terracing) or
ice th
> ickness is very variable
>
> Oli
>
>> On Oct 17, 2019, at 10:54 AM, Oliver Clarke <[log in to unmask]>
>> wrote:
>>
>> Oh never mind - I see they are written to the star file, just not to a log file, that’s fine
>>
>> Oli
>>
>>> On Oct 17, 2019, at 10:53 AM, Oliver Clarke <[log in to unmask]>
>>> wrote:
>>>
>>> OK - thanks Takanori! Also, when I select to fit per micrograph
>>> B-factors, it does not seem like there is any logfile output for that?
>>> Are the B-factors written out anywhere that I can inspect?
>>>
>>> Cheers
>>> Oli
>>>
>>>> On Oct 17, 2019, at 10:02 AM, Takanori Nakane
>>>> <[log in to unmask]> wrote:
>>>>
>>>> Hi,
>>>>
>>>> No. This is not supported.
>>>>
>>>> In my experience, if one group contains enough particles to
>>>> stably refine the beam tilt, you can also refine higher-order
>>>> aberrations and anisotropy.
>>>>
>>>> Best regards,
>>>>
>>>> Takanori Nakane
>>>>
>>>>> Hi,
>>>>> Is there any way to set different optics groups for different
>>>>> refinements
>>>>> in Relion 3.1? Or to ignore defined optics groups for a certain
>>>>> refinement?
>>>>>
>>>>> I have a dataset where I have previously performed grouped beam tilt
>>>>> refinement in Relion 3, and I would like to test out some of the
>>>>> higher
>>>>> order aberration estimation features in Relion 3. However, I suspect
>>>>> these
>>>>> may not be robust to the small groups used for beam tilt refinement,
>>>>> and
>>>>> every time I try to use the original star file it is automatically
>>>>> divided
>>>>> into optics groups presumably based on the beam tilt class column.
>>>>>
>>>>> Is there any way to tell relion to treat it all as one group, for the
>>>>> purposes of say refinement of anisotropic magnification, but keep the
>>>>> previously refined beam tilts for each group? I guess manually
>>>>> removing
>>>>> the beam tilt class column is one way, but something more reversible
>>>>> would
>>>>> be useful. I thought deleting the beamtilt class label from the
>>>>> header
>>>>> might do the trick, but then relion complains about the format of the
>>>>> star
>>>>> file.
>>>>>
>>>>> Cheers
>>>>> Oli
>>>>> ########################################################################
>>>>>
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>>>>>
>>>>
>>>>
>>>
>>
>
>
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