Stitching

Stitching is the action of aggregating together several projections datasets or several reconstructed volumes. This is a brief overview of stitching methods and how to benefit from it.

• z-stitching
  • overlaping
  • pre processing z-stitching (projections)
    • real life example of z-stitching projections
    • reference used for projection stitching
  • post processing z-stitching (reconstructed volumes)
    • real life example of z-stitching volumes
    • reference used for volume stitching
  • stitching using the GUI
  • stitching from the command line interface
    • creating a configuration file
    • editing a configuration file
    • calling nabu-stitching with the configuration file
    • from python and notebook
    • note on calling nabu with the stitched NXtomo
    • note on ordering
    • note on frame flips
    • note on management of rotation angle
    • real overlaps vs stitching overlap.
  • warning / bottlenecks
• overlap kernels strategies
  • mean strategy
  • closest strategy
  • linear weights strategy
  • cosinus weights strategy
• shift algorithms
• alignment
  • alignment on projections
    • ‘left’ alignment
    • ‘right’ alignment
    • ‘center’ alignment
  • alignment on reconstructed volumes
    • ‘front’ alignment along axis 2 (and left along axis 1)
    • ‘back’ alignment along axis 2 (and left along axis 1)
    • ‘center’ alignment along axis 2 (and left along axis 1)
    • ‘center’ alignment along axis 2 (and right along axis 1)
    • ‘center’ alignment along axis 2 (and center along axis 1)
• normalization by sample
  • configuration
• how to distribute stitching over slurm
• design
• data duplication
  • pre-processing stitching
  • post-processing stitching