Integrated Packages - I2PC/scipion GitHub Wiki

Important	This page is outdated. To see which software versions we support at the moment, check out individual plugin pages in https://github.com/scipion-em repository.

Below you can find the list of currently supported packages (and their versions). If you want to know which tools are integrated from each package, take a look at the integrated protocols page.

Bsoft

Webpage: http://lsbr.niams.nih.gov/bsoft/
Supported versions: 1.8.8 (Feb 2014), 1.9.0 (Feb 2015)

cryoEF *

Webpage: https://www.mrc-lmb.cam.ac.uk/crusso/cryoEF/
Supported versions: 1.1.0 (Oct 2017)

CTFFIND

Webpage: http://grigoriefflab.janelia.org/ctf
Supported versions: 3.6 (Jun 2014), 4.0.15 (Jun 2015), 4.1.5 (Sep 2016), 4.1.8 (Apr 2017), 4.1.10 (Jan 2018)

EMAN

Webpage: http://blake.bcm.edu/emanwiki/EMAN2
Supported versions: 2.11 (Jun 2015), 2.12 (Oct 2015)

ETHAN

Automated detection of spherical particles from electron micrographs
Supported versions: 1.2 (Oct 2001)

Frealign

Webpage: http://grigoriefflab.janelia.org/frealign
Supported versions: 9.07 (Apr 2014)

Gautomatch

Webpage: http://www.mrc-lmb.cam.ac.uk/kzhang/Gautomatch
Supported versions: 0.53 (Apr 2016)

gCTF

Webpage: http://www.mrc-lmb.cam.ac.uk/kzhang/Gctf
Supported versions: 0.50 (Mar 2016), 1.06 (Nov 2016)

gEMpicker

Webpage: http://gem.loria.fr/gEMpicker
Supported versions: 1.1 (Dec 2015)

IMAGIC-4D

Webpage: https://imagescience.de
Supported versions: 110308 (Mar 2011), 160418 (Apr 2016)

Localrec

Webpage: https://github.com/OPIC-Oxford/localrec
Supported versions: 1.1.0 (Jul 2016), 1.2.0 (Nov 2016)

Magdistortion: estimate and correct

Webpage: http://grigoriefflab.janelia.org/magdistortion
Supported versions: 1.0.1 (Jan 2016)

Motioncorr/dosefgpu

Webpage: http://cryoem.ucsf.edu/software/driftcorr.html
Supported versions: 2.1 (Nov 2013)

Motioncor2

Webpage: http://msg.ucsf.edu/em/software/motioncor2.html
Supported versions: 01-30-2017 (Jan 2017), 1.0.2 (Nov 2017), 1.0.5 (Jan 2018)

NYSBC 3DFSC *

Webpage: https://github.com/nysbc/Anisotropy
Supported versions: 2.5 (Sep 2017)

Relion

Webpage: http://www2.mrc-lmb.cam.ac.uk/relion/index.php/Main_Page
Supported versions: 1.4, 1.4-float (Sep 2015), 2.0.4 (Mar 2017), 2.1.0 (Dec 2017)

ResMap

Webpage: http://resmap.sourceforge.net/
Supported versions: 1.1.5 (Aug 2014)

SIMPLE

Webpage: http://simplecryoem.com/
Supported versions: 2.0 (Aug 2013)

SPIDER

Webpage: http://spider.wadsworth.org/spider_doc/spider/docs/spider.html
Supported versions: 21.13 (Dec 2013)

Xmipp

Webpage: http://xmipp.cnb.csic.es
Supported versions: 3.2 (Jan 2016)

Unblur & summovie

Webpage: http://grigoriefflab.janelia.org/unblur
Supported versions: 1.0.150529 (unblur), 1.0.2 (unblur & summovie, Jul 2015)

Asterisk (*) marks the software available only in devel-pluginization version of Scipion.