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Adding link to IBEX imaging community in README.
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blowekamp committed Jun 14, 2023
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SITK-IBEX: Aligning images acquired with the IBEX microscopy imaging technique
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This Python package was implemented as part of the development of the
This Python package implementation is part of the development of the
Iterative Bleaching Extends Multiplexity (IBEX) imaging technique. It enables
the alignment of multiple cycles of fluorescence images, acquired
using IBEX. A repeated marker is used to register all panels to a
selected panel (in the registration nomenclature this is the fixed image).
After registration all panels are resampled onto the fixed image.

More information about the development of the IBEX technique can be found in
the `IBEX Imaging Community`_, which is a community of researchers who are developing
the IBEX knowledge-base of reagents, protocols, panels, publications, software,
and datasets.

While this method was developed for a specific imaging protocol, it will likely
work for other sequential protocols that contain a repeated marker.
The registration approach is implemented using the
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.. _`PyPI - The Python Package Index`: https://pypi.org/project/sitkibex/
.. _Github Releases: https://github.com/niaid/sitk-ibex/releases
.. _10.1073/pnas.2018488117: https://www.pnas.org/doi/10.1073/pnas.2018488117
.. _`IBEX Imaging Community`: https://ibeximagingcommunity.github.io/ibex_imaging_knowledge_base/data_and_software.html

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