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LSM_Worker

LSM_Worker extracts Leaf Surface Morphology from Laser Scanning Microscopy images

The plugin can work with multi-channel multi-frame 3D images in *.lsm format obtained from a laser scanning microscope. The main functionality of the plugin includes:

  • Assembly and visualization of images.
  • Improve image quality (elimination of shear and overlap, application of the anisotropic diffusion algorithm).
  • Linear operations with intensity values from different channels.
  • Detection a 2D leaf surface.
  • Application of the segmentation algorithm for cellular and nuclear layers.
  • Manual correction of segmented regions.
  • Marking of cell groups.
  • Calculation of volumes for cells and nuclei.
  • Comparison of cells and nuclei by mutual arrangement.
  • Download images in tiff format for single-channel processing (multiple images for each channel can be downloaded).
  • Saving results in the form of tables and intermediate images, obtained at any stage of processing.

For more information read the wiki https://imagej.net/LSM_Worker

Test lsm image available here http://pixie.bionet.nsc.ru/LSM_WORKER/example.lsm

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