TiQuant: software for tissue analysis, quantification and surface reconstruction. Motivation: TiQuant is a modular software tool for efficient quantification of biological tissues based on volume data obtained by biomedical image modalities. It includes a number of versatile image and volume processing chains tailored to the analysis of different tissue types which have been experimentally verified. TiQuant implements a novel method for the reconstruction of three-dimensional surfaces of biological systems, data that often cannot be obtained experimentally but which is of utmost importance for tissue modelling in systems biology. Availability and implementation: TiQuant is freely available for non-commercial use at msysbio.com/tiquant. Windows, OSX and Linux are supported.

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