scipion-em-cryoef 1.0.5

Plugin to use Cryoef program within the Scipion framework

This plugin provide a wrapper around cryoEF program.

Installation

You will need to use 2.0 version of Scipion to be able to run these protocols. To install the plugin, you have two options:

1. Stable version

scipion installp -p scipion-em-cryoef

1. Developer’s version

   • download repository

   git clone https://github.com/scipion-em/scipion-em-cryoef.git
   

   • install

   scipion installp -p path_to_scipion-em-cryoef --devel
   

CryoEF binaries will be installed automatically with the plugin, but you can also link an existing installation. Default installation path assumed is software/em/cryoEF-1.1.0, if you want to change it, set CRYOEF_HOME in scipion.conf` file to the folder where the cryoEF is installed. To check the installation, simply run the following Scipion test:

scipion test cryoef.tests.test_protocols_cryoef.TestCryoEF

Supported versions

1.1.0

Protocols

• orientation analysis

Detailed manual can be found in software/em/cryoEF-1.1.0/cryoEF_v1.1.0_manual.pdf

References

• 1. Naydenova, K and Russo, CJ “Measuring the effects of particle orientation to improve the efficiency of electron cryomicroscopy” Nature Communications (2017).