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Using sum_movie to generate aligned stacks?

5 replies [Last post]
oliverbclarke
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Joined: 24 Jul 2015

Hi,

I've used unblur for whole frame alignment, and I'd like to try polishing in relion (but I only generated the aligned sums initially, not aligned stacks).

I still have the shifts files, so I'd like to use them with sum_movie to generate aligned stacks, to speed up the process and ensure that the overall alignment is identical (which I am not 100% sure is guaranteed if I run unblur again to do so).

Thoughts/suggestions?

Cheers

Oli

timgrant
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Joined: 16 Jul 2010
Hi Oli, I've hacked together

Hi Oli,

I've hacked together a version that saves the frames for you - you can download it here :-

http://grigoriefflab.janelia.org/node/5558

I've only done brief tests, so definitely check the output.

Cheers,

Tim

jstreetley
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Joined: 4 Mar 2018
I'd also like a copy of this

Hi Tim (long time, no see!)

I'd also like a copy of summovie that can output frames if possible. The two links in the this thread have already expired. I'd like to use it to dose-weight a tilt series, so I was thinking of giving it an alignment file of 0 0, but obviously a sum makes no sense in that context.

Cheers,

James

BertramDaum
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Joined: 22 Nov 2017
Hi Tim, this script would be

Hi Tim,

this script would be really useful for me as well, but unfortunately there is nothing under this link anymore. Would you mind providing the script again please?

Cheers,
Berti

timgrant
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Joined: 16 Jul 2010
Hi Berti, You can download

Hi Berti,

You can download the program here, please check results carefully as it is just quickly hacked together.

http://grigoriefflab.janelia.org/node/5831

Tim

oliverbclarke
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Joined: 24 Jul 2015
Thanks Tim! Apologies for the

Thanks Tim! Apologies for the late reply, I missed your post for some reason, but I've downloaded and tested the modified version now and it seems to work fine. Thanks again!

Cheers
Oli