Colour Deconvolution – stain unmixing in histological imaging
Research output: Contribution to journal › Article › peer-review
Authors
Colleges, School and Institutes
External organisations
- College of Medical and Dental Sciences, Institute of Clinical Sciences, School of Dentistry, University of Birmingham, Mill Pool Way, Edgbaston, Birmingham B5 7EG, U.K.
- Istituto Scientifico Romagnolo per lo Studio e la Cura dei Tumori (IRST) IRCCS, Meldola (FC), Italy
Abstract
Motivation: Microscopy images of stained cells and tissues play a central role in most biomedical experiments and routine histopathology. Storing colour histological images digitally opens the possibility to process numerically colour distribution and intensity to extract quantitative data. Among those numerical procedures is colour deconvolution, which enables decomposing an RGB image into channels representing the optical absorbance and transmittance of the dyes when their RGB representation is known. Consequently, a range of new applications become possible for morphological and histochemical segmentation, automated marker localisation and image enhancement.
Availability and implementation: Colour deconvolution is presented here in two open-source forms: a MATLAB program/function and an ImageJ plugin written in Java. Both versions run in Windows, Macintosh, and UNIX-based systems under the respective platforms. Source code and further documentation are available at: https://blog.bham.ac.uk/intellimic/g-landini-software/colour-deconvolution-2/
Supplementary information: Supplementary data are available at Bioinformatics online.
Availability and implementation: Colour deconvolution is presented here in two open-source forms: a MATLAB program/function and an ImageJ plugin written in Java. Both versions run in Windows, Macintosh, and UNIX-based systems under the respective platforms. Source code and further documentation are available at: https://blog.bham.ac.uk/intellimic/g-landini-software/colour-deconvolution-2/
Supplementary information: Supplementary data are available at Bioinformatics online.
Details
Original language | English |
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Journal | Bioinformatics |
Early online date | 30 Sep 2020 |
Publication status | E-pub ahead of print - 30 Sep 2020 |