Plugin to use Warp within the Scipion framework
Project description
This plugin provides a wrapper for some of the programs of the Warp software.
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:
Stable version
scipion installp -p scipion-em-warpDeveloper’s version
download repository
git clone -b devel https://github.com/scipion-em/scipion-em-warp.gitinstall
scipion installp -p /path/to/scipion-em-warp --devel
Verifying
To check the installation, simply run one of the following Scipion tests:
scipion3 tests warp.tests.protocols_tomo_tests.TestWarpEstimateCTFTomoReconstruction
scipion3 tests warp.tests.protocols_tomo_tests.TestDeconvolveTomo
scipion3 tests warp.tests.test_protocols.TestWarpMotionCorrection
scipion3 tests warp.tests.test_protocols.TestDeconvolveMics
Protocols
deconvolve micrographs
deconvolve tomograms
deconvolve tilt-series
tomo reconstruction
motion correction (for SPA)
tilt-series motion and ctf estimation (includes ctf estimation and defocus handedness)
References
Dimitry Tegunov and Patrick Cramer. Real-time cryo-electron microscopy data preprocessing with Warp. Nature Methods 16(11), 2019, p. 1146-1152.
