image processing and image analysis f o r medical visualization
Download
Skip this Video
Download Presentation
Image Processing and Image Analysis f o r Medical Visualization

Loading in 2 Seconds...

play fullscreen
1 / 33

Image Processing and Image Analysis f o r Medical Visualization - PowerPoint PPT Presentation


  • 185 Views
  • Uploaded on

Image Processing and Image Analysis f o r Medical Visualization. Classification. Preprocessing Segmentation procedures Semi-automatic procedures Automatic procedures Applications: Segmentation of organs, lesions and vessels Postprocessing with morphologic operators Skeletization

loader
I am the owner, or an agent authorized to act on behalf of the owner, of the copyrighted work described.
capcha
Download Presentation

PowerPoint Slideshow about ' Image Processing and Image Analysis f o r Medical Visualization' - mollie-rhodes


An Image/Link below is provided (as is) to download presentation

Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author.While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server.


- - - - - - - - - - - - - - - - - - - - - - - - - - E N D - - - - - - - - - - - - - - - - - - - - - - - - - -
Presentation Transcript
classification
Classification
  • Preprocessing
  • Segmentation procedures
    • Semi-automatic procedures
    • Automatic procedures
    • Applications: Segmentation of organs, lesions and vessels
  • Postprocessing with morphologic operators
  • Skeletization
  • Quantitative analysis of medical image data

Bernhard Preim

introduction
Introduction

Bernhard Preim

preprocessing
Preprocessing
  • Application of local or global image processing filters that support the subsequent processing
  • Examples:
    • noise reduction
    • edge enhancement
    • contrast enhancement
    • reduction of MR inhomogeneities

Bernhard Preim

preprocessing definitions
Preprocessing: Definitions
  • Histogram: Function that indicates the frequency of each grey value.
  • h(g) = |{p є (MN) with f(p) = g}|, ∑h(g) = M * N
  • Tri-modal histogram (histogram with three distinctive maxima)

Bernhard Preim

preprocessing definitions1
Preprocessing: Definitions
  • Point-oriented operations
    • The values of a voxel are changed (isolated), e.g. thresholding, subtraction, lookup table
  • Local filters (mask, cores)
    • The values of a voxel are changed dependent on the values in the neighborhood.
    • static and dynamic filters
    • Problem: treatment of edges
  • Global operations
    • Histogram equalization

Bernhard Preim

noise reduction
Noise Reduction

Overview over the filters:

  • Average filter
    • Linear noise filter, which flattens edges
  • Median filter
    • Edge-preserving noise filter, non-linear, rank filter
  • Gaussian filter
    • Non-linear noise filter, which flattens edges
  • Sigma filter
    • Non-linear noise filter

The filters (except Median) are normalized such that the sum of the absolute values is 1.

Bernhard Preim

noise reduction median filtering
Noise Reduction: Median Filtering
  • Procedure: The sequence of the grey values is identified in a local surrounding (3x3, 5x5).
  • Each grey value is replaced by the value which appears in the middle during the sorting
  • Example: 3x3 size, value 17, surrounding: (8,12, 12, 17, 19, 19, 21, 22, 24): replace 17 by 19
  • Similar filters: Minimum/maximum filter (after sorting the current pixel is replaced by the minimum/maximum value → enlargement of details)

Bernhard Preim

noise reduction median filtering1
Noise Reduction: Median Filtering

Application of a 5x5 Median filter to an axial slice of CT data

Bernhard Preim

noise reduction median filtering2
Noise Reduction: Median Filtering

Characteristics:

  • Good suppression of pulsed noise (outliers)
  • The average grey value of the image may vary
  • Edge transitions are preserved
  • Thin lines are suppressed

Suppression of thin lines is avoidable through a special kernel form.

Bernhard Preim

noise reduction gaussian filter
Noise Reduction: Gaussian Filter
  • Filtering with a discretized Gaussian function (Gaussian bell curve, weighted mean value)
  • Values correspond to binomial coefficients

1/16 * 1/256 *

Bernhard Preim

noise reduction gaussian filter1
Noise Reduction: Gaussian Filter

Characteristics:

  • Noise in a small surrounding is suppressed.
  • Sharp edges are smoothed.

Bernhard Preim

noise reduction gaussian filter2
Noise Reduction: Gaussian Filter

Gaussian filter for an MRI data set; screenshots: Vtk

Reference: Schroeder et al. (1998)

Bernhard Preim

noise reduction gaussian filter3
Noise Reduction: Gaussian Filter

3D ultrasound. Left: unfiltered, middle, right: moderate and strong Gaussian filter, respectively. (Sakas, 1995)

Bernhard Preim

noise feduction model assumptions
Noise Feduction: Model Assumptions
  • Gaussian filtering assumes a normally distributed noise
  • CT and X-ray images: assumption holds true
  • MRI data: asymmetric Rician distribution

CT data; Gaussian mixture model, Rician distribution (Source: Hennemuth, 2012)

Bernhard Preim

noise reduction sigma filter
Noise Reduction: Sigma Filter

Idea: Limit the noise filtering to pixels (voxels) that do not deviate too strong from the average value. Use of a parameter sigma, which doesn not concretize “too strong”.

  • Calculation of the standard deviationstd_dev within a kernel.

For each pixel (voxel) with p in the kernel with p(i) in [-sigma *std_dev, sigma *std_dev]

calculate the average value avg

For each pixel (voxel) with p in the kernel with p(i) in [-sigma *std_dev, sigma *std_dev]

p(i) avg.

Bernhard Preim

noise reduction sigma filter1
Noise Reduction: Sigma Filter

Left: original CT layer, right: Sigma filtered (11x11, sigma = 1.0)

(Screenshot: MeVis ILab4, data set: Uni Essen)

Bernhard Preim

noise reduction sigma filter2
Noise Reduction: Sigma Filter

Left: original CT layer, right: Sigma filtered (11x11, sigma = 1.0)

(Screenshot: MeVis ILab4, data set: Uni Essen)

Bernhard Preim

noise reduction diffusion filtering
Noise Reduction: Diffusion Filtering
  • Diffusion filtering yields better results (edge-preserving anisotropic filtering)

Reference: Lamecker at al. (2002)

Bernhard Preim

noise reduction diffusion filtering1
Noise Reduction: Diffusion Filtering
  • Parameters primarily adjust a trade-off between accuracy (small step size, high number of iterations) and speed

Bernhard Preim

noise reduction diffusion filtering2
Noise Reduction: Diffusion Filtering

Original

Median 5x5

Diffusion filter

Bernhard Preim

Bernhard Preim

22

noise reduction summary
Noise Reduction: Summary
  • Optimum quality (feature preservation and reduction of noise) is achieved with expensive diffusion filters (numerical solution of a set of partial differential equations)
  • Simple filters, such as Gaussian, have a higher performance.
  • Suitability of a filter depends on the characteristics of the noise (probability density function)

Bernhard Preim

reduction of mr inhomogeneities
Reduction of MR Inhomogeneities
  • Fields of the coils inhomogeneous
  • Consequence: brightening at edges; other form of inhomogeneity: streak artifacts
  • Correction: via modeling (bias field)

Bernhard Preim

reduction of mr inhomogeneities1
Reduction of MR Inhomogeneities

Correction of inhomogeneities with N3 algorithm (Sled, 1998).

Screenshot: A. Schenk, MeVis

Bernhard Preim

preprocessing contrast enhancement
Preprocessing: Contrast Enhancement
  • Goal: higher contrasts at object edges
  • Idea: Difference between the image and the Laplace-filtered image (Screenshots: vtk)

Bernhard Preim

preprocessing sharpen
Preprocessing: Sharpen

Characteristics:

  • Sum of all entries: 1
  • Contrast enhancement through negative values for surrounding pixels
  • Examples: Sharpness factor 0.5, radius 1 and 1.5, resp.

Bernhard Preim

preprocessing sharpen1
Preprocessing: Sharpen

Application of a Sharpen filter with 11x11 kernel

Bernhard Preim

preprocessing sharpen2
Preprocessing: Sharpen

Unsharp masking:

  • Idea: The strongly smoothed original image (generated e.g. through Gaussian filtering) is digitally subtracted from the original image. Thus, the unsharp areas are faded out (masked).

5x5 Gaussian filter, CT data set Uni Essen

Bernhard Preim

preprocessing problems
Preprocessing: Problems
  • Contrast enhancement is combined with noise enhancement.
  • Noise reduction also decreases contrasts.

Bernhard Preim

preprocessing adaptive neighborhoods
Preprocessing: Adaptive Neighborhoods
  • Problems during preprocessing are related to the fixed kernel sizes. In some image parts, they are too small, in others they are too large.
  • Idea: Adaptive neighborhoods, which adapt in size and form to local image characteristics (grey values, gradients, textures, …).
  • Procedure: Starting from each central pixel/voxel, pixels/voxels in the neighborhood, which are “similar” in relation to the chosen image characteristics, are searched.

Bernhard Preim

preprocessing adaptive neighborhoods1
Preprocessing: Adaptive Neighborhoods
  • Similarity is defined through an additive or multiplicative tolerance criterion. (i,j) is the central pixel/voxel. “f” are, e.g., grey values. “T1, T2” are threshold values.
  • Additive: |f(k,l) – f(i,j)|  T1
  • Multiplicative: (|f(k,l) – f(i,j)| )/ f(i,j)  T2

Specific procedure:

Search for pixels/voxels in the direct neighborhood that fulfill the similarity criterion.

Search for all of these pixels/voxels in their neighborhood (recursive).

Criterion for cancellation: no further pixels/voxels fulfill the criterion.

Bernhard Preim

preprocessing adaptive neighborhoods2
Preprocessing: Adaptive Neighborhoods

Applications:

  • Noise suppression (Gaussian, Median)
    • Edges are better preserved.
    • Tolerance criterion depends on the type of noise.
    • Unsuitable in case of pulsed noise.
  • Histogram modification
    • Instead of global equalization: application in adaptive neighborhood.
    • Application in case of image inhomogeneities, e.g. MR data.
  • Contrast enhancement
    • Medium contrasts may be specifically enhanced through the use of adaptive neighborhoods. (Strong contrasts need no enhancement, weak contrasts can mostly be traced back to noise.)

Bernhard Preim

preprocessing highlighting of elongated structures
Preprocessing: Highlighting of Elongated Structures

Elongated structures are identified via an Eigenvalue analysis of the Hessian matrix (approximated 2nd derivatives).

Major application: vasc. Structures -> vesselness filtering

More about this topic: In the exercises!

Bernhard Preim

ad