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HALO® Module

Branch Structure FL

The Branch Structure FL module performs analysis of branch-like structures such as retinal vessels or cortical neurons in fluorescence. The module identifies branch structures, performs structural analysis, and reports a variety of metrics that are near-impossible to measure manually. The module reports number of branch points, number of end points, total branch area, total branch length, average branch thickness, and tissue area. 

File formats supported by the HALO image analysis platform:

  • Non-proprietary (JPG, TIF, OME.TIFF)
  • Nikon (ND2)
  • 3D Histech (MRXS)
  • Akoya (QPTIFF, component TIFF)
  • Olympus / Evident (VSI)
  • Hamamatsu (NDPI, NDPIS)
  • Aperio (SVS, AFI)
  • Zeiss (CZI)
  • Leica (SCN, LIF)
  • Ventana (BIF)
  • Philips (iSyntax, i2Syntax)
  • DICOM (DCM*)
    *whole-slide images

Related HALO Modules

Object Colocalization FL

Count one or two fluorescently labeled objects and measures the object area, diameter, stain intensity, and colocalization (where applicable). Microvessel and amyloid plaque quantification are most common applications.

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Microglial Activation FL

Quantify microglial activation in fluorescence based on detection of microglia, soma, and processes, by counting branch points, and by determining area, length, and thickness of processes.

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Branch Structure

Quantify branched objects such as capillaries in brightfield.

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