Re: [scipion-users] Xmipp picking

[Jose M. de la R. T. <del...@gm...>]

Dear Dennis,

Thanks a lot for your feedback. The coordinates in Xmipp/Scipion store the
center of the coordinate. If you manage to write an script to convert the
coordinates, I would encourage you to try to write a protocol in Scipion to
extract particles with Eman (version 2 or 1, we only support Eman2). In
that way other users that want to extract with Eman2 may greatly benefit.
If you are interested I can help you with that.  If not, I can also help
with converting the SetOfCoordinates to EMAN .box files.

Cheers,
Jose Miguel


On Mon, Apr 24, 2017 at 9:35 PM, Dennis Thomas <
dt...@pr...> wrote:

> Hi I very much like the xmipp particle picking in Scipion but wanted to
> extract the particles in EMAN. The *.pos file is not read by EMAN so I
> wrote a script to convert the file to an EMAN .box format. However the
> particles extracted are wrong meaning nothing centered. Does xmipp save the
> center, top left or are the micrograph coordinates defined differently from
> EMAN?
>
> Thanks,
>
> Dennis
>
>
> --
> Dr. Dennis Thomas
> Cryo-EM Facility Manager
> Center for Integrative Proteomics Research
> Rutgers University
> Phone: 848-445-5302
>
>
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