Hi,
If you follow what I wrote in the previous mail,
you should be able to perform particle subtraction and focused
classification.
For re-extraction, you have to work in the original folder
or make symbolic links to relevant MotionCorr folders.
Best regards,
Takanori Nakane
On 2019/12/17 18:07, Y. Mutum wrote:
> Hi Takanori
>
> I hope this email finds you well.
> I have a similar small query regarding merging 2 datasets acquired from
> the same microscope - same pixel size, different doses. These datasets
> were processed independently in 2 separate directories - Classification
> in RELION3.0 and final polishing, CTFrefinements in RELION3.1.
> I would like to merge the 2 datasets containing the final polished
> particles, but would still like to be able to modify the particles. So,
> the final merged set of particles can have features with which we can
> subtract, re-extract etc, for focussed classification and other local
> refinements.
>
> Could you please let us help the way to go on about merging, to maintain
> these functionalities? The approach previously described here may not
> lend us these, if we are going to process the data further.
> Unless, I have to resort to a method I am not quite enthusiastic about -
> to re-process the whole datasets again, together in RELION3.1 from the
> beginning.
>
> Many thanks
> Yaikhomba
>
> ------------------------------------------------------------------------
> *From:* Collaborative Computational Project in Electron cryo-Microscopy
> <[log in to unmask]> on behalf of Takanori Nakane
> <[log in to unmask]>
> *Sent:* 05 December 2019 22:54
> *To:* [log in to unmask] <[log in to unmask]>
> *Subject:* Re: [ccpem] merging two datasets
> Hi,
>
> Joining polished (shiny) particles are easy.
>
> 1. Go to Polish folder within the dataset2 project.
>
> 2. Make a symbolic link to dataset1's Polish/jobXXX by FULL PATH.
> (A link by relative path sometimes causes unexpected problems
> in RELION when it tries to expand paths)
>
> 3. Make sure the optics group name in shiny.star from the dataset 1
> is different from the dataset 2.
>
> 4. Join shiny.star from dataset 1 and dataset 2.
> (You don't have to import; just go up .Node directory to see
> the file)
>
> 5. Refine & PostProcess
>
> 6. Run CtfRefine with "anisotropic magnification: Yes" to make sure
> the magnification is really the same.
>
> Best regards,
>
> Takanori Nakane
>
> On 2019/12/05 22:37, Humayun Sharif wrote:
>> Hello,
>>
>> Could anyone please comment on what would you do in the following scenario.
>>
>> We have both datasets taken on same microscope and with same settings.
>>
>> Dataset1: Motioncor and CTF done on *Relion 3.0 *and Refinement and
>> Polish on *3.1*
>> Dataset2: All jobs done on *3.1 *
>>
>> We would like to import Dataset1 (refined particles) in Dataset2 Relion
>> session and join the star files for further processing and reconstruction.
>>
>>
>>
>> Thanks
>>
>> --
>>
>> ______________________
>>
>> Regards,
>>
>> Humayun Sharif, PhD
>>
>> Research Fellow | Wu Lab
>> BCMP, Harvard Medical School
>>
>> Immune Disease Institute
>> PCMM, Boston Children's Hospital
>> 3 Blackfan Circle | Boston
>> MA, 02115, USA
>> P:+1-857-218-9051
>>
>>
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>>
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