scholarly journals CobWeb 1.0: machine learning toolbox for tomographic imaging

2020 ◽  
Vol 13 (1) ◽  
pp. 315-334
Author(s):  
Swarup Chauhan ◽  
Kathleen Sell ◽  
Wolfram Rühaak ◽  
Thorsten Wille ◽  
Ingo Sass
Keyword(s):  
Machine Learning ◽  
Image Analysis ◽  
Image Segmentation ◽  
User Interface ◽  
Image Enhancement ◽  
Graphical User Interface ◽  
Machine Learning Techniques ◽  
Easy Access ◽  
Digital Rock ◽  
Learning Techniques

Abstract. Despite the availability of both commercial and open-source software, an ideal tool for digital rock physics analysis for accurate automatic image analysis at ambient computational performance is difficult to pinpoint. More often, image segmentation is driven manually, where the performance remains limited to two phases. Discrepancies due to artefacts cause inaccuracies in image analysis. To overcome these problems, we have developed CobWeb 1.0, which is automated and explicitly tailored for accurate greyscale (multiphase) image segmentation using unsupervised and supervised machine learning techniques. In this study, we demonstrate image segmentation using unsupervised machine learning techniques. The simple and intuitive layout of the graphical user interface enables easy access to perform image enhancement and image segmentation, and further to obtain the accuracy of different segmented classes. The graphical user interface enables not only processing of a full 3-D digital rock dataset but also provides a quick and easy region-of-interest selection, where a representative elementary volume can be extracted and processed. The CobWeb software package covers image processing and machine learning libraries of MATLAB® used for image enhancement and image segmentation operations, which are compiled into series of Windows-executable binaries. Segmentation can be performed using unsupervised, supervised and ensemble classification tools. Additionally, based on the segmented phases, geometrical parameters such as pore size distribution, relative porosity trends and volume fraction can be calculated and visualized. The CobWeb software allows the export of data to various formats such as ParaView (.vtk), DSI Studio (.fib) for visualization and animation, and Microsoft® Excel and MATLAB® for numerical calculation and simulations. The capability of this new software is verified using high-resolution synchrotron tomography datasets, as well as lab-based (cone-beam) X-ray microtomography datasets. Regardless of the high spatial resolution (submicrometre), the synchrotron dataset contained edge enhancement artefacts which were eliminated using a novel dual filtering and dual segmentation procedure.

scholarly journals CobWeb 1.0: Machine Learning Tool Box for Tomographic Imaging

2019 ◽  
Author(s):  
Swarup Chauhan ◽  
Kathleen Sell ◽  
Freider Enzmann ◽  
Wolfram Rühaak ◽  
Thorsten Wille ◽  
...  
Keyword(s):  
Machine Learning ◽  
Image Analysis ◽  
Image Segmentation ◽  
User Interface ◽  
Image Enhancement ◽  
Graphical User Interface ◽  
Supervised Machine Learning ◽  
Easy Access ◽  
Digital Rock ◽  
Computational Performance

Abstract. Despite the availability of both commercial and open source software, an ideal tool for digital rock physics analysis for accurate automatic image analysis at ambient computational performance is difficult to pin point. More often image segmentation is driven manually where the performance remains limited to two phases. Discrepancies due to artefacts causes inaccuracies in image analysis. To overcome these problems, we have developed CobWeb 1.0 which is automated and explicitly tailored for accurate grayscale (multi-phase) image segmentation using unsupervised and supervised machine learning techniques. The simple and intuitive layout of the graphical user interface enables easy access to perform Image enhancement, Image segmentation and further to obtain the accuracy of different segmented classes. The graphical user interface enables not only processing of a full 3D digital rock dataset but also provides a quick and easy region-of-interest selection, where a representative elementary volume can be extracted and processed. The CobWeb software package covers image processing and machine learning libraries of MATLAB® used for image enhancement and image segmentation operations, which are compiled into series of windows executable binaries. Segmentation can be performed using unsupervised, supervised and ensemble classification tools. Additionally, based on the segmented phases, geometrical parameters such as pore size distribution, relative porosity trends and volume fraction can be calculated and visualized. The CobWeb software allows the export of data to various formats such as ParaView (.vtk), DSI Studio (.fib) for visualization and animation and Microsoft® Excel and MATLAB® for numerical calculation and simulations. The capability of this new software is verified using high-resolution synchrotron tomography datasets, as well as lab-based (cone-beam) X-ray micro-tomography datasets. Albeit the high spatial resolution (sub-micrometer), the synchrotron dataset contained edge enhancement artefacts which were eliminated using a novel dual filtering and dual segmentation procedure.

scholarly journals Evaluation of the Risk of Recurrence in Patients with Local Advanced Rectal Tumours by Different Radiomic Analysis Approaches

2021 ◽  
Vol 2021 ◽  
pp. 1-9
Author(s):  
Alaa Khadidos ◽  
Adil Khadidos ◽  
Olfat M. Mirza ◽  
Tawfiq Hasanin ◽  
Wegayehu Enbeyle ◽  
...  
Keyword(s):  
Machine Learning ◽  
Image Analysis ◽  
Deep Learning ◽  
Locally Advanced ◽  
Textural Analysis ◽  
Machine Learning Techniques ◽  
Response To Treatment ◽  
Learning Techniques ◽  
Potential Applications ◽  
Analysis Models

The word radiomics, like all domains of type omics, assumes the existence of a large amount of data. Using artificial intelligence, in particular, different machine learning techniques, is a necessary step for better data exploitation. Classically, researchers in this field of radiomics have used conventional machine learning techniques (random forest, for example). More recently, deep learning, a subdomain of machine learning, has emerged. Its applications are increasing, and the results obtained so far have demonstrated their remarkable effectiveness. Several previous studies have explored the potential applications of radiomics in colorectal cancer. These potential applications can be grouped into several categories like evaluation of the reproducibility of texture data, prediction of response to treatment, prediction of the occurrence of metastases, and prediction of survival. Few studies, however, have explored the potential of radiomics in predicting recurrence-free survival. In this study, we evaluated and compared six conventional learning models and a deep learning model, based on MRI textural analysis of patients with locally advanced rectal tumours, correlated with the risk of recidivism; in traditional learning, we compared 2D image analysis models vs. 3D image analysis models, models based on a textural analysis of the tumour versus models taking into account the peritumoural environment in addition to the tumour itself. In deep learning, we built a 16-layer convolutional neural network model, driven by a 2D MRI image database comprising both the native images and the bounding box corresponding to each image.

An Overview of Machine Learning in Medical Image Analysis

2017 ◽  
pp. 36-58 ◽  
Author(s):  
Anand Narasimhamurthy
Keyword(s):  
Machine Learning ◽  
Image Analysis ◽  
Medical Imaging ◽  
Health Informatics ◽  
Medical Image ◽  
Medical Image Analysis ◽  
Machine Learning Techniques ◽  
Learning Techniques ◽  
The Common ◽  
Applications Of Machine Learning

Medical image analysis is an area which has witnessed an increased use of machine learning in recent times. In this chapter, the authors attempt to provide an overview of applications of machine learning techniques to medical imaging problems, focusing on some of the recent work. The target audience comprises of practitioners, engineers, students and researchers working on medical image analysis, no prior knowledge of machine learning is assumed. Although the stress is mostly on medical imaging problems, applications of machine learning to other proximal areas will also be elucidated briefly. Health informatics is a relatively new area which deals with mining large amounts of data to gain useful insights. Some of the common challenges in health informatics will be briefly touched upon and some of the efforts in related directions will be outlined.

A methodology for automated CPA extraction using liver biopsy image analysis and machine learning techniques

2017 ◽  
Vol 140 ◽  
pp. 61-68 ◽  
Author(s):  
Markos G. Tsipouras ◽  
Nikolaos Giannakeas ◽  
Alexandros T. Tzallas ◽  
Zoe E. Tsianou ◽  
Pinelopi Manousou ◽  
...  
Keyword(s):  
Machine Learning ◽  
Image Analysis ◽  
Liver Biopsy ◽  
Machine Learning Techniques ◽  
Learning Techniques ◽  
Biopsy Image
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