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napari-stitcher

A napari plugin for stitching large multi-positioning datasets in 2/3D+t using multiview-stitcher.

Image data by Arthur Michaut @ Jérôme Gros Lab @ Institut Pasteur.

Quick guide:

  1. Directly stitch napari layers: Use napari to load, visualize and preposition the tiles to be stitched.
  2. When working with multi-channel data, stick to the following naming convention: {tile} :: {channel}.
  3. Load either all or just a subset of the layers into the plugin.
  4. Choose registration options: registration channel, binning and more.
  5. Stitching = registration (refining the positions, optional) + fusion (joining the tiles into a single image).
  6. The registration result is shown in the viewer and the fused channels are added as new layers.

Demo

This demo uses the awesome napari-threedee for prepositioning the tiles. Image data: BigStitcher.