Dissemin is shutting down on January 1st, 2025

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Nature Research, Nature Methods, 3(19), p. 311-315, 2021

DOI: 10.1038/s41592-021-01308-y

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MCMICRO: a scalable, modular image-processing pipeline for multiplexed tissue imaging

This paper was not found in any repository, but could be made available legally by the author.
This paper was not found in any repository, but could be made available legally by the author.

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Data provided by SHERPA/RoMEO

Abstract

AbstractHighly multiplexed tissue imaging makes detailed molecular analysis of single cells possible in a preserved spatial context. However, reproducible analysis of large multichannel images poses a substantial computational challenge. Here, we describe a modular and open-source computational pipeline, MCMICRO, for performing the sequential steps needed to transform whole-slide images into single-cell data. We demonstrate the use of MCMICRO on tissue and tumor images acquired using multiple imaging platforms, thereby providing a solid foundation for the continued development of tissue imaging software.