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SIDESPLITTER plugin

This plugin provides a wrapper for SIDESPLITTER program for mitigating local overfitting.

PyPI release License Supported Python versions SonarCloud quality gate Downloads

Installation

You will need to use 3.0+ 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-sidesplitter
  1. Developer's version

    • download repository
    git clone -b devel https://github.com/scipion-em/scipion-em-sidesplitter.git
    
    • install
    scipion installp -p /path/to/scipion-em-sidesplitter --devel
    

SIDESPLITTER sources will be installed automatically with the plugin, but you can also link an existing installation.

  • Default installation path assumed is software/em/sidesplitter-1.2, if you want to change it, set SIDESPLITTER_HOME in scipion.conf file pointing to the folder where the SIDESPLITTER is installed.

To check the installation, simply run one of the following Scipion tests:

scipion test sidesplitter.tests.test_protocol_sidesplitter.TestSideSplitter

A complete list of tests can also be seen by executing scipion test --show --grep sidesplitter

Supported versions

1.2

Protocols

  • local filter

References

  1. Kailash Ramlaul, Colin M. Palmer and Christopher H. S. Aylett (2020). Mitigating Local Over-fitting During Single Particle Reconstruction with SIDESPLITTER. https://www.biorxiv.org/content/10.1101/2019.12.12.874081v2

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Plugin to use SIDESPLITTER within the Scipion framework

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