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Image Processing Part 1

Image Processing Part 1. Image Processing Using ImageJ. Norbert Vischer. Centre for Advanced Microscopy University of Amsterdam. From Images to Results. From Images to Results. Image processing Image Analysis Data Organization. ImageJ Menus. Image as a matrix (CCD).

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Image Processing Part 1

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  1. Image Processing Part 1 Image Processing Using ImageJ Norbert Vischer Centre for Advanced Microscopy University of Amsterdam

  2. From Images to Results From Images to Results Image processing Image Analysis Data Organization

  3. ImageJ Menus

  4. Image as a matrix (CCD) Image as a matrix Full well capacity: 15 000 electrons

  5. An image is a matrix of numbers

  6. Color images Color images Missing fields are interpolated 4 MP camera: 1 MPixel red 2 MPixel green 1 MPixel blue 4 MP color image 4 MPixel red 4 MPixel green 4 MPixel blue

  7. File types (Save Command) File types

  8. TIFF (Tag Image File Format) : 8-bit 16 bit, 32bit, RGB, uncompressed in ImageJ JPEG / JFIF: Lossy Compression, 1:25 GIF (Graphics Interchange Format) : 8 bit Graphics, Animation, lossless PNG (Portable Network Graphics): RGB Graphics, Transparency, lossless, superior to GIF, for screenshots DICOM FITS File types File types

  9. TIFF is the most versatile format TIFF Format • - 8 Bit • - 16 Bit • - RGB color • 32 Bit Floating point • --------------------------- • - (Hyper-)Stacks • - Metadata • - Spatial calibration • Density calibration • - Only uncompressed TIFF in ImageJ TIFF: A File system within a file

  10. Hyperstacks need TIFF

  11. JPEG Compression • JPEG Compression / Decompression

  12. JPEG Artifacts JPEG Artifacts 8 * 8 cell

  13. Bit depth of image types Bit depth

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