HistoClean: open-source software for histological image pre-processing and augmentation to improve development of robust convolutional neural networks

Kris D. McCombe; Stephanie G. Craig; Amélie Viratham Pulsawatdi; Javier I. Quezada-Marín; Matthew Hagan; Simon Rajendran; Matthew P. Humphries; Victoria Bingham; Manuel Salto-Tellez; Richard Gault; Jacqueline A. James

HistoClean: open-source software for histological image pre-processing and augmentation to improve development of robust convolutional neural networks

Kris D. McCombe, Stephanie G. Craig, Amélie Viratham Pulsawatdi, Javier I. Quezada-Marín, Matthew Hagan, Simon Rajendran, Matthew P. Humphries, Victoria Bingham, Manuel Salto-Tellez, Richard Gault, Jacqueline A. James^*

^*Corresponding author for this work

Research output: Working paper

134 Downloads (Pure)

Original language	English
Publication status	Published - 26 Aug 2021

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HistoClean: open-source software for histological image pre-processing and augmentation to improve development of robust convolutional neural networks
Copyright 2021 the Authors This preprint is distributed under a Creative Commons Attribution-NonCommercial-NoDerivs License (https://creativecommons.org/licenses/by-nc-nd/4.0/), which permits distribution and reproduction for non-commercial purposes, provided the author and source are cited.
Submitted manuscript, 935 KBLicence: CC BY-NC-ND

1 Participation in conference

24th Irish Machine Vision and Image Processing Conference 2022
Gault, R. (Conference committee chair), Porter, V. (Member of the organising committee), Lydon, D. (Member of the organising committee), McCombe, K. (Member of the organising committee), McWhirter, R. (Member of the organising committee) & Fahim, M. (Member of the organising committee)
31 Aug 2022 → 02 Sept 2022
Activity: Participating in or organising an event types › Participation in conference

The prognostic value of tertiary lymphoid structures in cancer; a digital pathology and artificial intelligence approach
McCombe, K. D. (Author), Craig, S. (Supervisor), Gault, R. (Supervisor) & James, J. (Supervisor), Dec 2024
Student thesis: Doctoral Thesis › Doctor of Philosophy

2 Conference contribution

Train for stain: adapting for diverse H&E staining profiles across centers in classification of mitotic figures (GLIOMA-MDC 2025)
Brown, A., Porter, V., Baine, A. & Gault, R., 12 Mar 2025, (Accepted) 2025 IEEE International Symposium on Biomedical Imaging (ISBI): Proceedings. Institute of Electrical and Electronics Engineers Inc., (IEEE International Symposium on Biomedical Imaging (ISBI): Proceedings).
Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
Influence of magnification in deep learning aided image segmentation in histological digital image analysis
McCombe, K. D., Craig, S. G., James, J. A. & Gault, R., 31 Aug 2022, Proceedings of the 24th Irish Machine Vision and Image Processing Conference. Irish Pattern Recognition & Classification Society, p. 161-164
Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Open Access
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222 Downloads (Pure)

Cite this

@techreport{0d525f6d38614b80b7a22114457dc4d1,

title = "HistoClean: open-source software for histological image pre-processing and augmentation to improve development of robust convolutional neural networks",

author = "McCombe, {Kris D.} and Craig, {Stephanie G.} and {Viratham Pulsawatdi}, Am{\'e}lie and Quezada-Mar{\'i}n, {Javier I.} and Matthew Hagan and Simon Rajendran and Humphries, {Matthew P.} and Victoria Bingham and Manuel Salto-Tellez and Richard Gault and James, {Jacqueline A.}",

year = "2021",

month = aug,

day = "26",

language = "English",

type = "WorkingPaper",

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TY - UNPB

T1 - HistoClean: open-source software for histological image pre-processing and augmentation to improve development of robust convolutional neural networks

AU - McCombe, Kris D.

AU - Craig, Stephanie G.

AU - Viratham Pulsawatdi, Amélie

AU - Quezada-Marín, Javier I.

AU - Hagan, Matthew

AU - Rajendran, Simon

AU - Humphries, Matthew P.

AU - Bingham, Victoria

AU - Salto-Tellez, Manuel

AU - Gault, Richard

AU - James, Jacqueline A.

PY - 2021/8/26

Y1 - 2021/8/26

M3 - Working paper

BT - HistoClean: open-source software for histological image pre-processing and augmentation to improve development of robust convolutional neural networks

ER -

HistoClean: open-source software for histological image pre-processing and augmentation to improve development of robust convolutional neural networks

Access to Document

Activities

24th Irish Machine Vision and Image Processing Conference 2022

Student theses

The prognostic value of tertiary lymphoid structures in cancer; a digital pathology and artificial intelligence approach

Research output

Train for stain: adapting for diverse H&E staining profiles across centers in classification of mitotic figures (GLIOMA-MDC 2025)

Influence of magnification in deep learning aided image segmentation in histological digital image analysis

Cite this