Subtomogram tutorial

• Introduction
  • Requirements
  • Getting Organised
• Import
• Motion correction
• CTF estimation
• Exclude tilt-images
• Align tilt-series
• Reconstruct tomograms
• Denoise tomograms
  • Train
  • Predict
  • Analysing the results
• Particle picking
• Extract subtomos
• Import coordinates
• De novo 3D model generation
  • Running the job
  • Analysing the results
• Reconstruct particle
  • Running the job
  • Analysing the results
• Initial 3D refinement
  • Running the auto-refine job at bin 6
  • Analysing the results
  • Pseudo-subtomograms at bin 2
  • Obtaining a 3D reference at bin 2
  • Running the auto-refine job at bin 2
• Duplicate particles removal
• 3D classification
  • Running the 3D classification job
  • Analysing the results of the 3D classification
  • Discarding the bad particles
  • Visualising the remaining particles
• High-resolution 3D refinement
  • Pseudo-subtomograms and reference map at bin 1
  • Masks for high-resolution refinement and FSC estimation
  • Running the auto-refine job at bin 1
  • Post-processing
• Tomo refinement cycle
  • Reference map and FSC data
  • Running the jobs
  • 3D refinement
• Tomo refinement 1: CTF refinement
  • Running the job
  • Analysing the results
• Tomo refinement 2: Bayesian polishing
  • Running the job
  • Analysing the results
• Model building with ModelAngelo
  • Running the job
  • Analysing the results