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INSIDE MATTERS 3D X-Ray Microscopy
Insights to Innovate
SOFTWARE
ACTIVITY
2 COMPANY PRESENTATION SOFTWARE
Services
Visual
Inspection
Microstructure
Analysis
Dimensional
Measurement
4D X-Ray
Microscopy
Software Octopus
Reconstruction
Octopus
Analysis
Octopus
Visualization
OCTOPUS AT A GLANCE
• Octopus was originally developed for neutron tomography
• Octopus Reconstruction extended towards other systems and geometries
• Extended from solely reconstruction to Visualization and Analyis
• New platform under construction*: Cloud solution
3 COMPANY PRESENTATION SOFTWARE
*in cooperation with Agfa Healthcare
MAIN GOALS
4 COMPANY PRESENTATION SOFTWARE
Visual and quantitative
information
Combine our software with
your own hardware
State-of-the-art algorithms
and workflows in processing
non-medical tomography data
Benefit immediately from all
changes through automatic
update system
Octopus
OCTOPUS SOFTWARE PACKAGES
5 COMPANY PRESENTATION SOFTWARE
Reconstruct
data from micro-CT, industrial
CT, neutron and synchrotron
tomography
Analyze
the microstructure of scanned
objects
Visualize
the scanned object as a virtual
3D image
OCTOPUS SOFTWARE PACKAGES
6 COMPANY PRESENTATION SOFTWARE
RECONSTRUCTION
•  Scanner
independent
reconstruction
solution
•  High performance
•  Intuitive approach
•  Access to advanced
correction methods
VISUALIZATION
•  Freely available
3D volume and
surface renderer
•  Linked with Octopus
Analysis
•  Virtual fly through
•  Exporting as image
stack or movie
ANALYSIS
•  Intuitive 3D analysis
software
•  Filtering
•  Segmentation
•  Parameter
extraction
OCTOPUS RECONSTRUCTION
• Scanner independent reconstruction
solution
• High performance (multicore, multi node,
multi GPU)
• Intuitive approach (single slice testing)
• Access to advanced correction methods
• Beam hardening
• Ring removal
• Phase contrast reduction
• Misalignment correction
7 COMPANY PRESENTATION SOFTWARE
• Today: industry standard reconstruction
algorithms
• Parallel and fan beam : FBP
• Cone beam : FDK
• Helical cone beam :
 NEW: Iterative reconstruction
 Proven track record in neutron imaging,
synchrotron, microCT, industrial CT, …
OCTOPUS RECONSTRUCTION
8 COMPANY PRESENTATION SOFTWARE
OCTOPUS RECONSTRUCTION
9 COMPANY PRESENTATION SOFTWARE
OCTOPUS RECONSTRUCTION
10 COMPANY PRESENTATION SOFTWARE
Flexible parameter determination
OCTOPUS RECONSTRUCTION
11 COMPANY PRESENTATION SOFTWARE
Phase contrast module GPU support
OCTOPUS RECONSTRUCTION
12 COMPANY PRESENTATION SOFTWARE
•  Simultaneous Algebraic Reconstruction Technique (SART)
•  Inherent better handling of:
•  Noise
•  Limited number of projections
•  Missing angular range
•  Cone beam artifacts
•  ....
•  Possibility to include additional physical effects in
forward projection
Iterative reconstruction
MODELLING BEAM HARDENING IN SART: RESULTS
13 COMPANY PRESENTATION SOFTWARE
Brabant, L., et al. A novel beam hardening correction method requiring no prior knowledge, incorporated in an iterative reconstruction algorithm. NDT & E International, 51:68–73, 2012.
OCTOPUS ANALYSIS
14 COMPANY PRESENTATION SOFTWARE
•  Powerful 3D analysis software package,
formerly known as Morpho+
•  Determination of porosity and volume fraction
•  Volume of Interest determination
•  Object identification
•  Object parameterization and selection
•  Object separation
OCTOPUS ANALYSIS
15 COMPANY PRESENTATION SOFTWARE
•  Maximum opening
•  Minimum closing
•  Equivalent ellipsoid
•  Orientation
•  Stereoplot
•  Connections between objects
•  Number of neighboring objects
•  Skeletonization
•  Tortuosity
•  ivalent diameter
•  Sphericity
•  Surface
•  …
OCTOPUS ANALYSIS
EXAMPLE: BEERLEGEM FIELDSTONE
16
DIFFERENT COMPONENTS:
Quarz grains
Glauconite grains
Cement
Brabant, L., et al. Advanced Segmentation Algorithms for the Three-Dimensional Analysis of X-Ray CT Data from Geomaterials. in IAMG 2011: Mathematical Geosciences at the Crossroads of Theory and Practice.
2011. Salzburg.
COMPANY PRESENTATION SOFTWARE
OCTOPUS ANALYSIS
EXAMPLE: BEERLEGEM FIELDSTONE
17
Brabant, L., et al. Advanced Segmentation Algorithms for the Three-Dimensional Analysis of X-Ray CT Data from Geomaterials. in IAMG 2011: Mathematical Geosciences at the Crossroads of Theory and Practice.
2011. Salzburg.
DIFFERENT VALUES FOR DIFFERENT COMPONENTS:
Quartz grains Glauconite grains
Fraction 73 % 7 %COMPANY PRESENTATION SOFTWARE
DIFFERENT VALUES FOR
COMPONENTS:
Glauconite grains
HIGHER GRAY VALUE
QUARZ GRAINS AND CEMENT
QUARTZ AND CEMENT: SAME
GRAY VALUE, DIFFERENT
MAXIMUM OPENING (CEMENT <
75 )
Cement
OCTOPUS VISUALIZATION
18
•  Various rendering methods
•  Advanced lighting settings &
Adjustable rendering quality
•  Link with Octopus Analysis
•  Object manipulation
•  Volume filtering
•  Movie creator
•  FREELY available
COMPANY PRESENTATION SOFTWARE
OCTOPUS VISUALIZATION
19 COMPANY PRESENTATION SOFTWARE
OCTOPUS ANALYSIS + VISUALIZATION
20 COMPANY PRESENTATION SOFTWARE
OCTOPUS ANALYSIS + VISUALIZATION
21 COMPANY PRESENTATION SOFTWARE
NEUTRON TOMOGRAPHY: SANDSTONE
22
ICON BEAMLINE PSI*, VOXEL SIZE = 13,3 µM
626 projections +
SART
126 projections +
FBP
126 projections +
SART
*Kaestner, AP et al. The ICON beamline - A facility for cold neutron imaging at SINQ NIM A
659, 387 (2011).DOI:10.1016/j.nima.2011.08.022 
COMPANY PRESENTATION SOFTWARE
RECONSTRUCTION + ANALYSIS + VISUALIZATION
23
626 projections + SART 126 projections + FBP 126 projections + SART
COMPANY PRESENTATION SOFTWARE
CONTACT DETAILS
Inside Matters bvba
Sylvain van der Guchtlaan 24
9300 Aalst
T +32 53 39 05 30
F +32 53 30 01 15
M +32 498 27 14 73
info@insidematters.eu
www.insidematters.eu

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Inside Matters - 3D X-Ray Microscopy - Software - Octopus Imaging

  • 1. INSIDE MATTERS 3D X-Ray Microscopy Insights to Innovate SOFTWARE
  • 2. ACTIVITY 2 COMPANY PRESENTATION SOFTWARE Services Visual Inspection Microstructure Analysis Dimensional Measurement 4D X-Ray Microscopy Software Octopus Reconstruction Octopus Analysis Octopus Visualization
  • 3. OCTOPUS AT A GLANCE • Octopus was originally developed for neutron tomography • Octopus Reconstruction extended towards other systems and geometries • Extended from solely reconstruction to Visualization and Analyis • New platform under construction*: Cloud solution 3 COMPANY PRESENTATION SOFTWARE *in cooperation with Agfa Healthcare
  • 4. MAIN GOALS 4 COMPANY PRESENTATION SOFTWARE Visual and quantitative information Combine our software with your own hardware State-of-the-art algorithms and workflows in processing non-medical tomography data Benefit immediately from all changes through automatic update system Octopus
  • 5. OCTOPUS SOFTWARE PACKAGES 5 COMPANY PRESENTATION SOFTWARE Reconstruct data from micro-CT, industrial CT, neutron and synchrotron tomography Analyze the microstructure of scanned objects Visualize the scanned object as a virtual 3D image
  • 6. OCTOPUS SOFTWARE PACKAGES 6 COMPANY PRESENTATION SOFTWARE RECONSTRUCTION •  Scanner independent reconstruction solution •  High performance •  Intuitive approach •  Access to advanced correction methods VISUALIZATION •  Freely available 3D volume and surface renderer •  Linked with Octopus Analysis •  Virtual fly through •  Exporting as image stack or movie ANALYSIS •  Intuitive 3D analysis software •  Filtering •  Segmentation •  Parameter extraction
  • 7. OCTOPUS RECONSTRUCTION • Scanner independent reconstruction solution • High performance (multicore, multi node, multi GPU) • Intuitive approach (single slice testing) • Access to advanced correction methods • Beam hardening • Ring removal • Phase contrast reduction • Misalignment correction 7 COMPANY PRESENTATION SOFTWARE • Today: industry standard reconstruction algorithms • Parallel and fan beam : FBP • Cone beam : FDK • Helical cone beam :  NEW: Iterative reconstruction  Proven track record in neutron imaging, synchrotron, microCT, industrial CT, …
  • 8. OCTOPUS RECONSTRUCTION 8 COMPANY PRESENTATION SOFTWARE
  • 9. OCTOPUS RECONSTRUCTION 9 COMPANY PRESENTATION SOFTWARE
  • 10. OCTOPUS RECONSTRUCTION 10 COMPANY PRESENTATION SOFTWARE Flexible parameter determination
  • 11. OCTOPUS RECONSTRUCTION 11 COMPANY PRESENTATION SOFTWARE Phase contrast module GPU support
  • 12. OCTOPUS RECONSTRUCTION 12 COMPANY PRESENTATION SOFTWARE •  Simultaneous Algebraic Reconstruction Technique (SART) •  Inherent better handling of: •  Noise •  Limited number of projections •  Missing angular range •  Cone beam artifacts •  .... •  Possibility to include additional physical effects in forward projection Iterative reconstruction
  • 13. MODELLING BEAM HARDENING IN SART: RESULTS 13 COMPANY PRESENTATION SOFTWARE Brabant, L., et al. A novel beam hardening correction method requiring no prior knowledge, incorporated in an iterative reconstruction algorithm. NDT & E International, 51:68–73, 2012.
  • 14. OCTOPUS ANALYSIS 14 COMPANY PRESENTATION SOFTWARE •  Powerful 3D analysis software package, formerly known as Morpho+ •  Determination of porosity and volume fraction •  Volume of Interest determination •  Object identification •  Object parameterization and selection •  Object separation
  • 15. OCTOPUS ANALYSIS 15 COMPANY PRESENTATION SOFTWARE •  Maximum opening •  Minimum closing •  Equivalent ellipsoid •  Orientation •  Stereoplot •  Connections between objects •  Number of neighboring objects •  Skeletonization •  Tortuosity •  ivalent diameter •  Sphericity •  Surface •  …
  • 16. OCTOPUS ANALYSIS EXAMPLE: BEERLEGEM FIELDSTONE 16 DIFFERENT COMPONENTS: Quarz grains Glauconite grains Cement Brabant, L., et al. Advanced Segmentation Algorithms for the Three-Dimensional Analysis of X-Ray CT Data from Geomaterials. in IAMG 2011: Mathematical Geosciences at the Crossroads of Theory and Practice. 2011. Salzburg. COMPANY PRESENTATION SOFTWARE
  • 17. OCTOPUS ANALYSIS EXAMPLE: BEERLEGEM FIELDSTONE 17 Brabant, L., et al. Advanced Segmentation Algorithms for the Three-Dimensional Analysis of X-Ray CT Data from Geomaterials. in IAMG 2011: Mathematical Geosciences at the Crossroads of Theory and Practice. 2011. Salzburg. DIFFERENT VALUES FOR DIFFERENT COMPONENTS: Quartz grains Glauconite grains Fraction 73 % 7 %COMPANY PRESENTATION SOFTWARE DIFFERENT VALUES FOR COMPONENTS: Glauconite grains HIGHER GRAY VALUE QUARZ GRAINS AND CEMENT QUARTZ AND CEMENT: SAME GRAY VALUE, DIFFERENT MAXIMUM OPENING (CEMENT < 75 ) Cement
  • 18. OCTOPUS VISUALIZATION 18 •  Various rendering methods •  Advanced lighting settings & Adjustable rendering quality •  Link with Octopus Analysis •  Object manipulation •  Volume filtering •  Movie creator •  FREELY available COMPANY PRESENTATION SOFTWARE
  • 19. OCTOPUS VISUALIZATION 19 COMPANY PRESENTATION SOFTWARE
  • 20. OCTOPUS ANALYSIS + VISUALIZATION 20 COMPANY PRESENTATION SOFTWARE
  • 21. OCTOPUS ANALYSIS + VISUALIZATION 21 COMPANY PRESENTATION SOFTWARE
  • 22. NEUTRON TOMOGRAPHY: SANDSTONE 22 ICON BEAMLINE PSI*, VOXEL SIZE = 13,3 µM 626 projections + SART 126 projections + FBP 126 projections + SART *Kaestner, AP et al. The ICON beamline - A facility for cold neutron imaging at SINQ NIM A 659, 387 (2011).DOI:10.1016/j.nima.2011.08.022  COMPANY PRESENTATION SOFTWARE
  • 23. RECONSTRUCTION + ANALYSIS + VISUALIZATION 23 626 projections + SART 126 projections + FBP 126 projections + SART COMPANY PRESENTATION SOFTWARE
  • 24. CONTACT DETAILS Inside Matters bvba Sylvain van der Guchtlaan 24 9300 Aalst T +32 53 39 05 30 F +32 53 30 01 15 M +32 498 27 14 73 info@insidematters.eu www.insidematters.eu