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Quantification and Spatial Relationship Karsten Rodenacker, Neuherberg Martina Hausner, München Anna A. Gorbushina, Oldenburg Forschungszentrum g
Content Introduction from perception to image analysis Measurement objects, groups of objects inter- and intra-relationships Examples Conclusion
Introduction Perception – recognition – differentiation – description Quantification Relation of qualitative and quantitative terms
Introduction The difficulty NOT to see something
Introduction The difficulty to see anything
Introduction The ease to see the impossible
Introduction Quantitative terms
Introduction How to relate qualitative and quantitative terms?
Introduction Digitisation Segmentation
Introduction Sub sectioning and change of scale
Introduction Extension Size Shape Structure Measurement (of one object)
Introduction Arrangement Relation Neighbourhood Measurement (of several objects)
Examples of measurements, objects and groups of objects Spatial relationships Measurement
Area Perimeter Extension
Measurement Shape Growth shape Density, intensity
Measurement Extensions Length (skeleton) =1621 px mean thickness =2.27 px
Measurement Neighbourhood closing on filaments
Measurement Spatial Relationship Delaunay triangulation nearest neighbours minimum spanning tree convex hull Skeleton neighbourhood
Measurement Spatial Relationship Example from pathology
Measurement Spatial relationship ( objects of different type) Distances to the red phaseDouble marked sludge flocks
Measurement Measurement continuum Measurement hierarchy pixelcontent location properties object content location external properties
Example Bacterial growth in flow chambers Differentiation of wild and mutant bacteria pseudomonas aeruginosa by CLSM imaging
Example Wild (PA) and mutant (MW) bacteria Growth over time (slice # = depth)
Example Substrate coverage (closing) Wild type bacteriaMutant bacteria
Example Comparison of bacterial growth ( substrate area distribution, growth patterns ) mutant wild type
Example Bacterial growth in flow chambers Conjugative genetic transfer in bacterial biofilm
Example Quantification of colonies of micro colonial fungi from sub aerial biofilms coniosporium sp. and sarcinomyces sp. under soil (b), sand (s) coverage and in air (l)
Example Colonies of micro colonial fungi
Example Colonies of micro colonial fungi
Conclusion Perception, description and measurement of objects and object groups in images Exclusions (e.g. texture, filtering, fractals, etc.) Faith and (apparent) truth
Depth Intensity Correction of Biofilm Volume Data From CLSM Karsten Rodenacker 1, Martina Hausner 2, Martin Kühn 2, Stefan Wuertz 2, Sumitra Purkayastha.
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