gEMpicker protocols

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gEMpicker specifications

Information


Unique identifier OMICS_15685
Name gEMpicker
Software type Package/Module
Interface Command line interface, Graphical user interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux
Programming languages C, C++
Computer skills Advanced
Stability Stable
Requirements
Boost, FFTW, CUDA Toolkit
Maintained Yes

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Maintainer


  • person_outline Thai Hoang <>

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Publication for gEMpicker

gEMpicker in pipeline

2016
PMCID: 5052680
PMID: 27665925
DOI: 10.1038/ncomms12856

[…] 3.5 ē å−2 per frame). images in the stack were aligned using the whole image motion correction method described in ref. . particles (159,000) were picked automatically using the in-house software gempicker and the contrast transfer function of every image was determined using ctffind4 (ref. ) in the relion workflow. for the first steps of refinement, images were coarsened by 2 (c2 images) […]


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gEMpicker in publication

PMCID: 4947174
PMID: 27418187
DOI: 10.1038/ncomms12126

[…] classification in relion to produce representative two-dimensional (2d) class averages that were used as cross-correlation references for automated particle picking in all frames with the gempicker software. the full data set was then partitioned in 2d using relion to eliminate images containing contamination or bad particles. structure refinement was done in relion using a starting […]


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gEMpicker institution(s)
Inria Nancy - Grand Est, Villers-lès-Nancy, France; IGBMC, Illkirch, France
gEMpicker funding source(s)
This work was funded in part by CNRS and by Agence Nationale de la Recherche, grant reference ANR-MNU-006-02.

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