Workflows


Color normalization of H&E stains

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Workflow Author: 

Mitko Veta

Dependencies: 
Workflow Language: 
Dimension: 
2D
Input data type: 
RGB
Output data type: 
RGB
Example Image URL: 
Comment / Instructions: 

The overall colors seen in H&E stained slides can vary widely, influenced by factors such as the precise stains and scanner used. This MATLAB function implements the color normalization strategy described in [1] in order to match stain colors in an image more closely to 'reference' stains. This may help when comparing images visually, or when applying an automated analysis algorithm.

The function may also be useful to understand the functioning of the color deconvolution described in [2].

References

  1. [2482] Macenko M., Niethammer M., Marron J.S., Borland D., Woosley J.T., Guan X, Schmitt C., Thomas N.E.
    2009.  A method for normalizing histology slides for quantitative analysis. Biomedical Imaging: From Nano to Macro, 2009. ISBI '09. IEEE International Symposium on.
  2. [2451] Ruifrok AC, Johnston DA
    2001.  Quantification of histochemical staining by color deconvolution.. Anal Quant Cytol Histol. 23(4):291-9.
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