Applications: Difference between revisions

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Below you can find selected example applications, some of them have been published already.
Below you can find selected example applications, some of them have been published already.


== Scratch assay analysis ==
* [[Applications/PaCeQuant | PaCeQuant]] (released with MiToBo 1.8.6), <br/> for quantifying pavement cell shape in a high-throughput manner


published in<br/>
* [[Applications/MTBCellCounter | MTB Cell Counter]] (since MiToBo 1.5), <br/> a tool for semi-automatic labeling and counting of spot-like structures like, e.g., plastides, stress granules or p-bodies
''M. Glaß, B. Möller, A. Zirkel, K. Wächter, S. Hüttelmaier and S. Posch,<br/>
'''"Scratch Assay Analysis with Topology-preserving Level Sets and Texture Measures"'''.<br/>
Proc. of Iberian Conference on Pattern Recognition and Image Analysis (IbPRIA '11), LNCS 6669, pp. 100-108, Springer, Las Palmas de Gran Canaria, Spain, June 2011.''


'''Name of Plugin:'''<br/>
* [[Applications/MiCa | MiCA - MiToBo Cell Image Analyzer]]<br/> for segmenting cell boundaries and sub-cellular particles in fluorescent microscopy images
ScratchAssay_Analysis (since MiToBo version 0.9.5)


'''Description:'''<br/>
* [[Applications/NeuronAnalyzer2D | Neuron Analyzer 2D]]<br/> for segmenting the area of neurites and quantify protein concentrations within these neurites
* Quantifies the scratch area in monolayer cell culture images with levelset techniques
* Combines the results from images of different time points in a results table
* [[Applications/ScratchAssayAnalyzer | Scratch Assay Analyzer]]<br/> for analysis of collective cell migration based on scratch/ wound closure assay images


* [[Applications/CellMigrationAnalyzer | Cell Migration Analyzer]]<br/> for migration analysis based on single cell tracking


'''Example images'''<br/>
* [[Applications/ActinAnalyzer2D | Actin Analyzer 2D]] (since MiToBo 1.4) <br/> for quantifying and comparing actin microfilament structures
[http://www.informatik.uni-halle.de/mitobo/downloads/scratch_examples.zip Scratch assay images]

Revision as of 07:37, 22 September 2017

Several image processing pipelines have already been developed in MiToBo.
Below you can find selected example applications, some of them have been published already.

  • PaCeQuant (released with MiToBo 1.8.6),
    for quantifying pavement cell shape in a high-throughput manner
  • MTB Cell Counter (since MiToBo 1.5),
    a tool for semi-automatic labeling and counting of spot-like structures like, e.g., plastides, stress granules or p-bodies
  • Neuron Analyzer 2D
    for segmenting the area of neurites and quantify protein concentrations within these neurites
  • Actin Analyzer 2D (since MiToBo 1.4)
    for quantifying and comparing actin microfilament structures