HistomicsTK is an open-source project that provides developers with building blocks for creating pathology image analysis pipelines. It includes functions for preprocessing like color normalization routines, color deconvolution, and color space transformations, functions for nuclei segmentation, and a feature extraction library for computing morphometric features. HistomicsTK also includes a large number of utility functions for working with annotations from the Digital Slide Archive and to prepare results for visualization in DSA.
HistomicsTK can function as a stand-alone library, or as a Digital Slide Archive plugin that allows users to invoke image analysis jobs through HistomicsUI. The functionality offered by HistomicsTK can be extended using slicer cli web which allows developers to integrate their image analysis algorithms into DSA for dissemination through HistomicsUI and the Digital Slide Archive.
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