Welcome to the SAT Guide!

Hint

Click here to go back to the SAT.

Contents:

• Introduction
• Configuring your local computer
  • Installing Python
  • Creating a virtual environment
  • Installing sfftk
  • Testing your installation
• Application-specific segmentation file format guides
  • CCP4/CCP-EM masks (.map/.mrc/.rec)
  • Stereolithography (STL) files (.stl)
  • IMOD files (.mod)
  • Amira/Avizo files (.am/.hx/.surf)
  • Segger files (.seg)
  • SuRVoS (.h5)
  • ilastik files (.h5)
  • Other formats (.ply, .object etc.)
• Prepping your segmentation file(s)
• Converting to EMDB-SFF
  • Converting files to EMDB-SFF
  • Extracting geometry
  • Creating EMDB-SFF files from scratch (Advanced)
• Annotating your segmentation
  • Online with SAT
  • Locally with sfftk (advanced users)
• Merging annotations
• Depositing your annotated segmentation into EMPIAR
• Frequently Asked Questions
  • What type of files can SAT work with?
  • I have a segmentation generated from a popular program. How can I annotate it?
  • Can I convert EMDB-SFF into other file formats?
  • Is the SAT the only way to annotate an EMDB-SFF file?
• Glossary

Indices and tables

• Index

• Search Page

• Back to SAT