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

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  • Additional Information
    • Contributors:
      Massachusetts Institute of Technology. Department of Biology
    • Publication Information:
      Springer Science and Business Media LLC
    • Publication Date:
      2023
    • Collection:
      DSpace@MIT (Massachusetts Institute of Technology)
    • 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.
    • File Description:
      application/pdf
    • Relation:
      Nature Methods; https://hdl.handle.net/1721.1/147096
    • Online Access:
      https://hdl.handle.net/1721.1/147096
    • Rights:
      Creative Commons Attribution 4.0 International license ; https://creativecommons.org/licenses/by/4.0/
    • Accession Number:
      edsbas.221C1D8A