Institute of Computational Biology Cytometry Application Software

• Idl PROGRAMS for evaluation of cytometrical projects

  A cytometrical project consists of specimens (German Praeparat) and a parameter set for handeling the project. Each specimen consists of objects, in cytometry typically images of cells, eventually the mask images for each object and background images (German Weissbild). Objects are either digital images in our private format called DTP-file or tif-images. In DTP-file format the object image can contain in the least significant bit the mask for the region of interest. In scene mode this can be a set of regions. Tif-images need for this purpose a separate DTP-file containing the mask(s).

  The evaluation of a project consists of the processing steps Image gathering (definition of objects), Image segmentation (definition of regions of interest), Feature evaluation (calculation of morphological, densitometrical, textural and achitectural features) and Statistical data evaluation (correlation of external project, specimen and object data with internal ones, supervised classification, unsuperwised classification, testing)

  • PICKPROJECT

    Graphical user interface (GUI) for general users for selection of projects, specimens and objects. The following programs can be activated from the GUI. References point to short descriptions.

  • PROJEKT_TEST
    Lists actual state of Project

  • W_TEST
    Tests actual state of background images

  • SCHWELLE_A
    Calculates for all objects of a specimen either automatic thresholds or generates the masks for the regions of interest.

  • SCHWELLE_K
    Interactive control, change and enhancement of thresholds or masks of an object

  • PRAEPARAT_ZEIGEN
    Display of objects of a specimen with or without mask display overlay. Additionally it allows the selection of objects to be changed by SCHWELLE_K

  • PRAEPARAT_RECHNEN
    Calculates features for each object of a specimen

  • PARAMETER
    Shows project parameters controlling the way of defining regions of interest and feature calculation

  • PARAMETER_SET
    Sets project parameters

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• SAMBA
  • Morphometry

  • DNA measurement

  • Proliferation marker measurement

  • AgNOR measurement

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• Leica QWin
  • DNA measurement

  • Proliferation marker measurement

  • General image processing and analysis

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Last modified: 12.10.2014