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Broadside

Broadside is an image processing pipeline used by the Laboratory for Bio-Micro Devices @ Brigham & Women's Hospital in Boston, MA. It consists of the following pre-processing steps:

  1. pre-process
    1. make illumination profiles using pybasic
    2. make unmixing cache
    3. make corrected stacks
    4. register and stitch using ASHLAR
  2. annotate, and view unmixing results
  3. post-process
    1. nucleus and cell segmentation
    2. quantification and spillover correction