Graphical interface manuals

The following guides show you how to perform certain actions using the GUI:

• Introduction to Scipion's GUI
• Using the default viewer for Scipion objects
• Using the default viewer for Coordinates objects
• How to install plugins

Tutorials

These tutorials provides a quick introduction to processing with Scipion.

Single particle tutorials

• Introduction to Scipion
• Initial model estimation
• Mix-and-match in Scipion
• Relion in Scipion
• Full processing video tutorial
• Mouse apoferritin image processing in Scipion 3.0.0
• Initial volume validation by SAXS
• Localized reconstruction in Scipion

Tomography tutorials

Warning

Tomography functionality is almost ready to be open for betatesting. For now, betatesting is only open upon request. If you are willing to help this project, please contact us at scipion@cnb.csic.es

• Tomogram Reconstruction
• Manual Tomogram Reconstruction with etomo
• Tomogram Reconstruction and Local Resolution Analysis with MonoTomo
• Picking Tutorial
• Denoising, Membrane Segmentation and Annotation and Directional Picking
• Subtomogram Averaging Ribosome (Part I)
• Subtomogram Averaging HIV (Part II)

Model Building

• Model Building by Homology
• Build initial model with Alphafold

Processing How To’s

Importing Data

Importing Data: Importing data is the first step for any Scipion project. Find out how to import movies, micrographs, CTFs, and particles and which are the formats currently supported.

Creating subsets

Creating subsets: Find out how to create subsets from micrographs, particles, volumes or from 2D/3D classifications. This tool is valid for results from any package.

FAQ

FAQ: Frequently Asked Questions

Relion in Scipion

Relion in Scipion: Check how to use Relion inside Scipion. Some of the original Relion FAQ are addressed.