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TILED DATA RECONSTRUCTION AND CORRECTION

TILED DATA RECONSTRUCTION AND CORRECTION. ASHWINI NIKKAM JITHU JOSE SHRAVYA RAO. INTRODUCTION. When a large biological specimen has to be pictured in high resolution, it must be done in tiles.  Tiles must be fit or stitched together to form one image. 

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TILED DATA RECONSTRUCTION AND CORRECTION

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  1. TILED DATA RECONSTRUCTION AND CORRECTION ASHWINI NIKKAM JITHU JOSE SHRAVYA RAO

  2. INTRODUCTION • When a large biological specimen has to be pictured in high resolution, it must be done in tiles.  • Tiles must be fit or stitched together to form one image.  • Overlap  between each tile and its neighbors.

  3. OUR GOAL • OLYMPUS Data Conversion • Accurately stitch multiple images • Correct the brightness differences across the image

  4. BIO-FORMAT IMPORTER • Bio-format Importer is a plugIn to load images into Fiji or ImageJ. • Opens proprietary formats that contains batches of images and converts into OME data model.

  5. OLYMPUS DATA CONVERSION • Approach: A custom plugIn that calls the Bio-formats Importer PlugIn • The custom plugIn launches the Bio-format importer to select and read the images • Converts and saves images in .tiff format

  6. OLYMPUS DATA CONVERSION PLUGIN

  7. OLYMPUS DATA CONVERSION

  8. STITCHING OF IMAGES • Stitching PlugIn is used to reconstruct big images from arbitrary number of tiled input images. • Stitching has two plugIns: 1.Pairwise stitching 2.Grid/Collection stitching

  9. STITCHING OF IMAGES • Pairwise stitching –Stitches, loads two images loads and saves to hard disk. • Grid/collection stitching- Stitches an arbitrary collection or grid images(2d,3d,4d,5d) of same type .

  10. STITCHING OF IMAGES

  11. STITCHING OF IMAGES

  12. STITCHING OF IMAGES

  13. CORRECTING BRIGHTNESS

  14. CORRECTING BRIGHTNESS

  15. REFERENCES • http://fiji.sc/Bio-Formats • http://fiji.sc/Image_Stitching

  16. THANK YOU

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