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dr inż. Jan Cychnerski
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- Assistant professor at Department of Computer Architecture
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total: 42
Catalog Publications
Year 2024
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Adaptive Hounsfield Scale Windowing in Computed Tomography Liver Segmentation
PublicationIn computed tomography (CT) imaging, the Hounsfield Unit (HU) scale quantifies radiodensity, but its nonlinear nature across organs and lesions complicates machine learning analysis. This paper introduces an automated method for adaptive HU scale windowing in deep learning-based CT liver segmentation. We propose a new neural network layer that optimizes HU scale window parameters during training. Experiments on the Liver Tumor...
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Assessment Of the Relevance of Best Practices in The Development of Medical R&D Projects Based on Machine Learning
PublicationMachine learning has emerged as a fundamental tool for numerous endeavors within health informatics, bioinformatics, and medicine. However, novices among biomedical researchers and IT developers frequently lack the requisite experience to effectively execute a machine learning project, thereby increasing the likelihood of adopting erroneous practices that may result in common pitfalls or overly optimistic predictions. The paper...
Year 2022
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Architecture Design of a Networked Music Performance Platform for a Chamber Choir
PublicationThis paper describes an architecture design process for Networked Music Performance (NMP) platform for medium-sized conducted music ensembles, based on remote rehearsals of Academic Choir of Gdańsk University of Technology. The issues of real-time remote communication, in-person music performance, and NMP are described. Three iterative steps defining and extending the architecture of the NMP platform with additional features to...
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Comparison of image pre-processing methods in liver segmentation task
PublicationAutomatic liver segmentation of Computed Tomography (CT) images is becoming increasingly important. Although there are many publications in this field there is little explanation why certain pre-processing methods were utilised. This paper presents a comparison of the commonly used approach of Hounsfield Units (HU) windowing, histogram equalisation, and a combination of these methods to try to ascertain what are the differences...
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Creating a radiological database for automatic liver segmentation using artificial intelligence.
PublicationImaging in medicine is an irreplaceable stage in the diagnosis and treatment of cancer. The subsequent therapeutic effect depends on the quality of the imaging tests performed. In recent years we have been observing the evolution of 2D to 3D imaging for many medical fields, including oncological surgery. The aim of the study is to present a method of selection of radiological imaging tests for learning neural networks.
Year 2021
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Process of Medical Dataset Construction for Machine Learning-Multifield Study and Guidelines
PublicationThe acquisition of high-quality data and annotations is essential for the training of efficient machine learning algorithms, while being an expensive and time-consuming process. Although the process of data processing and training and testing of machine learning models is well studied and considered in the literature, the actual procedures of obtaining data and their annotations in collaboration with physicians are in most cases...
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Segmentation Quality Refinement in Large-Scale Medical Image Dataset with Crowd-Sourced Annotations
PublicationDeployment of different techniques of deep learning including Convolutional Neural Networks (CNN) in image classification systems has accomplished outstanding results. However, the advantages and potential impact of such a system can be completely negated if it does not reach a target accuracy. To achieve high classification accuracy with low variance in medical image classification system, there is needed the large size of the...
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Semantic segmentation training using imperfect annotations and loss masking
PublicationOne of the most significant factors affecting supervised neural network training is the precision of the annotations. Also, in a case of expert group, the problem of inconsistent data annotations is an integral part of real-world supervised learning processes, well-known to researchers. One practical example is a weak ground truth delineation for medical image segmentation. In this paper, we have developed a new method of accurate...
Year 2020
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Automated Classifier Development Process for Recognizing Book Pages from Video Frames
PublicationOne of the latest developments made by publishing companies is introducing mixed and augmented reality to their printed media (e.g. to produce augmented books). An important computer vision problem that they are facing is classification of book pages from video frames. The problem is non-trivial, especially considering that typical training data is limited to only one digital original per book page, while the trained classifier...
Year 2017
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Clothes Detection and Classification Using Convolutional Neural Networks
PublicationIn this paper we describe development of a computer vision system for accurate detection and classification of clothes for e-commerce images. We present a set of experiments on well established architectures of convolutional neural networks, including Residual networks, SqueezeNet and Single Shot MultiBox Detector (SSD). The clothes detection network was trained and tested on DeepFashion dataset, which contains box annotations...
Year 2016
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Depth Images Filtering In Distributed Streaming
PublicationIn this paper, we propose a distributed system for point cloud processing and transferring them via computer network regarding to effectiveness-related requirements. We discuss the comparison of point cloud filters focusing on their usage for streaming optimization. For the filtering step of the stream pipeline processing we evaluate four filters: Voxel Grid, Radial Outliner Remover, Statistical Outlier Removal and Pass Through....
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DEPTH IMAGES FILTERING IN DISTRIBUTED STREAMING
PublicationIn this paper we discuss the comparison of point cloud filters focusing on their applicability for streaming optimization. For the filtering stage within a stream pipeline processing we evaluate three filters: Voxel Grid, Pass Through and Statistical Outlier Removal. For the filters we perform series of the tests aiming at evaluation of changes of point cloud size and transmitting frequency (various fps ratio). We propose a distributed...
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Towards Healthcare Cloud Computing
PublicationIn this paper we present construction of a software platform for supporting medical research teams, in the area of impedance cardiography, called IPMed. Using the platform, research tasks will be performed by the teams through computer-supported cooperative work. The platform enables secure medical data storing, access to the data for research group members, cooperative analysis of medical data and provide analysis supporting tools...
Year 2014
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A Regular Expression Matching Application with Configurable Data Intensity for Testing Heterogeneous HPC Systems
PublicationModern High Performance Computing (HPC) systems are becoming increasingly heterogeneous in terms of utilized hardware, as well as software solutions. The problems, that we wish to efficiently solve using those systems have different complexity, not only considering magnitude, but also the type of complexity: computation, data or communication intensity. Developing new mechanisms for dealing with those complexities or choosing an...
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Accelerating Video Frames Classification With Metric Based Scene Segmentation
PublicationThis paper addresses the problem of the efficient classification of images in a video stream in cases, where all of the video has to be labeled. Realizing the similarity of consecutive frames, we introduce a set of simple metrics to measure that similarity. To use these observations for decreasing the number of necessary classifications, we propose a scene segmentation algorithm. Performed experiments have evaluated the acquired...
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AN ALGORITHM FOR PORTAL HYPERTENSIVE GASTROPATHY RECOGNITION ON THE ENDOSCOPIC RECORDINGS
PublicationSymptoms recognition of portal hypertensive gastropathy (PHG) can be done by analysing endoscopic recordings, but manual analysis done by physician may take a long time. This increases probability of missing some symptoms and automated methods may be applied to prevent that. In this paper a novel hybrid algorithm for recognition of early stage of portal hypertensive gastropathy is proposed. First image preprocessing is described....
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ANYTIME POLYNOMIAL HEURISTIC ALGORITHM FOR PARTITIONING GROUPS OF DATA WITH PRESERVING CLASS PROPORTIONS FOR CROSS-VALIDATION
PublicationThe article describes a problem of splitting data for k-fold cross-validation, where class proportions must be preserved, with additional constraint that data is divided into groups that cannot be split into different cross-validation sets. This problem often occurs in e.g. medical data processing, where data samples from one patient must be included in the same cross-validation set. As this problem is NP-complete, a heuristic...
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Data Mining Applications and Methods in Medicine
PublicationIn this paper we describe the research area of data mining and its applications in medicine. The origins of data mining and its crucial features are shortly presented. We discuss the specificity of medicine as an application area for computer systems. Characteristic features of the medical data are investigated. Common problems in the area are also presented as well as the strengths and capabilities of the data mining methods....
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Efficiency comparison of selected endoscopic video analysis algorithms
PublicationIn the paper, selected image analysis algorithms were examined and compared in the task of identifying informative frames, blurry frames, colorectal cancer and healthy tissue on endoscopic videos. In order to standardize the tests, the algorithms were modified by removing from them parts responsible for the classification, and replacing them with Support Vector Machines and Artificial Neural Networks. The tests were performed in...
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Endoscopy video analysis algorithms and their independence of rotation , brightness , contrast , color and blur
PublicationThe article presents selected image analysis algorithms for endoscopy videos. Mathematical methods that are part of these algorithms are described, and authors’ claims about the characteristics of these algorithms, such as the independence of rotation, brightness, contrast, etc. are mentioned. Using the common test on the real endoscopic image database and a set of image transformations, the validity of these claims was checked...
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Obtaining a Well-Trained Artificial Intelligence Algorithm from Cross-Validation in Endoscopy
PublicationThe article shortly discusses endoscopic video analysis problems and artificial intelligence algorithms supporting it. The most common method of efficiency testing of these algorithms is to perform intensive cross-validation. This allows for accurately evaluate their performance of generalization. One of the main problems of this procedure is that there is no simple and universal way of obtaining a specific instance of a well-trained...
Year 2013
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Algorytmy rozpoznawania zmian chorobowych
PublicationW pracy przedstawiono, opisano i porównano pod wzgledem skutecznosci wybrane algorytmy rozpoznawania chorób w filmach endoskopowych, zaimplementowane w ramach aplikacji Wspomagania Badan Medycznych. Dokonano oceny algorytmów w zaawansowanym srodowisku testowym, zbudowanym w oparciu o duzy zbiór obrazów z filmów endoskopowych, pozyskanych we współpracy z Gdanskim Uniwersytetem Medycznym. Jednoczesnie zaprezentowano sposób optymalizacji...
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An Overview of Image Analysis Techniques in Endoscopic Bleeding Detection
PublicationAuthors review the existing bleeding detection methods focusing their attention on the image processing techniques utilised in the algorithms. In the article, 18 methods were analysed and their functional components were identified. The authors proposed six different groups, to which algorithms’ components were assigned: colour techniques, reflecting features of pixels as individual values, texture techniques, considering spatial...
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Aplikacja MedEye dla diagnostyki układu pokarmowego
PublicationOmówiono problematyke badan endoskopowych za pomoca endoskopii kapsułkowej. Zaprezentowano główne komponenty oraz zakres funkcjonalnosci aplikacji MedEye, wspomagajacej tego typu diagnostyke. Na podstawie subiektywnych ocen lekarzy wyciagnieto ogólne wnioski na temat przydatnosci poszczególnych jej elementów. W podsumowaniu opisano perspektywy jej rozwoju i wdrozenia w srodowisku medycznym.
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Endoscopic Videos Deinterlacing and On-Screen Text and Light Flashes Removal and Its Influence on Image Analysis Algorithms' Efficiency
PublicationIn this article, deinterlacing and removing on- screen text and light flashes methods on endoscopic video images are discussed. The research is intended to improve disease recognition algorithms' performance. In the article, four configurations of deinterlacing methods and another four configurations of text and flashes removal methods are described and examined. The efficiency of endoscopic video analysis algorithms is measured...
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ISSUES OF CLASSIFICATION FUNCTION CONTINUITY IN ENDOSCOPIC VIDEO CLASSIFICATION
PublicationIn the article a new way of analyzing the properties of feature vector functions (FVF) and classiers of images in a video stream is proposed. The general idea is based on focusing of the perceived continuity of the FVF and classier functions. Issues related to creating an exact mathematical model are discussed and a simplied solution is proposed. An exemplary algorithm is evaluated on three exemplary video sequences. The acquired...
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MEAN SHIFT BASED SEGMENTATION FOR BLEEDING REGIONS IN ENDOSCOPIC VIDEOS
PublicationWith a set of 38 manually marked bleeding regions form endoscopic videos, the authors attempted to find an optimal image segmentation method for reproducing doctor’s markup. Mean shift segmentation combined with HSV histogram segmentation were used as a segmentation method, which was then optimized by tuning the parameters of the method using global optimization algorithm. A target function for measuring the quality of segmentation was...
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METHOD OF TRAINING THE ENDOSCOPIC VIDEO ANALYSIS ALGORITHMS TO MAXIMIZE BOTH ACCURACY AND STABILITY
PublicationIn the article a new training and testing method of endoscopic video analysis algorithms is presented. Classical methods take into account only eciency of recognizing objects on single video frames. Proposed method additionally considers stability of classiers output for real video input. The method is simple and can be trained on data sets created for other solutions. Therefore, it is easily applicable to existing endoscopic video...
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PERFORMANCE OF ENDOSCOPIC IMAGE ANALYSIS ALGORITHMS IN LARGE BOWEL VIDEOS PROCESSING
PublicationComputer-assisted endoscopy is a rapidly developing eld of study. Many image anal- ysis algorithms exist, achieving very high rates of eciency at processing single endoscopic images. However, most of them were never tested in processing real-life endoscopic videos. In the article such tests of 16 endoscopy image analysis algorithms are presented and dis- cussed. Tests were performed on two real-life endoscopic videos of a human...
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Real-Time Bleeding Detection in Gastrointestinal Tract Endoscopic Examinations Video
PublicationThe article presents a novel approach to medical video data analysis and recognition of bleedings. Emphasis has been put on adapting pre-existing algorithms dedicated to the detection of bleedings for real-time usage in a medical doctor’s office during an endoscopic examination. A real-time system for analyzing endoscopic videos has been designed according to the most significant requirements of medical doctors. The main goal of...
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Scene Segmentation Basing on Color and Depth Images for Kinect Sensor
PublicationIn this paper we propose a method for segmenting single images from Kinect sensor by considering both color and depth information. The algorithm is based on a series of edge detection procedures designed for particular features of the scene objects. RGB and HSV color planes are separately analyzed in the first step with Canny edge detector, resulting in overall color edges mask. In depth images both clear boundaries and smooth...
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Tworzenie i wykorzystanie bazy wzorców zmian chorobowych
PublicationPrzedstawiono bazy danych zbudowane na potrzeby systemu wspomagania badan medycznych oraz aplikacje je wykorzystujace. Szczególna uwaga poswiecona została bazie danych wzorców medycznych, której rozmiar czyni ja jedna z wiekszych baz stosowanych w dziedzinie. Artykuł zawiera obszerny przeglad zgromadzonych w bazie przypadków chorobowych, zestawionych według rodzajów schorzen oraz według miejsca wystapienia schorzenia. Konstrukcja...
Year 2012
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An Overview of the Development of a Real-Time System for Endoscopic Video Classification
PublicationThe article presents the results of improving endoscopic image classification algorithms in an effort towards applying them in a real-time diagnosis supporting system. Methods for the detection and removal of personal data are presented and discussed. The currently developed recognition algorithms have been improved in terms of accuracy and performance to make them suitable for a real-life implementation. Their test results are...
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Anonimizacja obrazów z nagrań endoskopowych w systemie wspomagania diagnostyki chorób przewodu pokarmowego
PublicationW artykule skoncentrowano sie na problemie anonimizacji obrazów z filmów endoskopowych w systemie wspomagania diagnostyki przewodu pokarmowego. Opisano źródła obrazów endoskopowych pod katem zawartosci danych personalnych. Zaproponowano algorytmy automatycznego usuwania tych danych, zbadano ich skutecznosc oraz dokonano oceny przydatnosciw systemie wspomagania diagnostyki.
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Contour Analysis of Bleeding Regions in Endoscopic Images
PublicationThis paper investigates the problem of detecting bleeding regions in images acquired from endoscopic examinations of gastrointestinal tract. The purpose is to identify the characteristic features of bleeding areas' contours in order to develop an accurate method for discriminating between true bleeding regions and missed detections, which could lead to a significant reduction of the false alarm rate of existing blood-detection...
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Dependable Integration of Medical Image Recognition Components
PublicationComputer driven medical image recognition may support medical doctors in the diagnosis process, but requires high dependability considering potential consequences of incorrect results. The paper presentsa system that improves dependability of medical image recognition by integration of results from redundant components. The components implement alternative recognition algorithms of diseases in thefield of gastrointestinal endoscopy....
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Endoscopic Video Classification with the Consideration of Temporal Patterns
PublicationThe article describes a novel approach to automatic recognition and classification of diseases in endoscopic videos. Current directions of research in this field are discussed. Most presented methods focus on processing single frames and do not take into consideration the temporal relationship between continuous classifications. Existing approaches that consider the temporal structure of an incoming frame sequence are focused on...
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Konstrukcja bazy danych dla systemu wspomagania diagnostyki chorób przewodu pokarmowego
PublicationW artykule krótko przedstawiono charakterystykę procesu diagnostyki chorób przewodu pokarmowego oraz istniejące techniki wspomagania go na bazie analizy zdjęć z badań endoskopowych. Szczegółowo opisano proces tworzenia specjalistycznej bazy danych medycznych, której przeznaczeniem jest wspomaganie procesu uczenia klasyfikatorów chorób przewodu pokarmowego. Na koniec przedstawiono zebrane w bazie dane oraz uzyskane efekty.
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Real-Time Gastrointestinal Tract Video Analysis on a Cluster Supercomputer
PublicationThe article presents a novel approach to medical video data analysis and recognition. Emphasis has been put on adapting existing algorithms detecting le- sions and bleedings for real time usage in a medical doctor's office during an en- doscopic examination. A system for diagnosis recommendation and disease detec- tion has been designed taking into account the limited mobility of the endoscope and the doctor's requirements. The...
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The Influence of Selecting Regions from Endoscopic Video Frames on The Efficiency of Large Bowel Disease Recognition Algorithms
PublicationThe article presents our research in the field of the automatic diagnosis of large intestine diseases on endoscopic video. It focuses on the methods of selecting regions of interest from endoscopic video frames for further analysis by specialized disease recognition algorithms. Four methods of selecting regions of interest have been discussed: a. trivial, b. with the deletion of characteristic, endoscope specific additions to the...
Year 2011
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Artificial intelligence support for disease detection in wireless capsule endoscopy images of human large bowel
PublicationIn the work the chosen algorithms of disease recognition in endoscopy images were described and compared for theirs efficiency. The algorithms were estimated with regard to utility for application in computer system's support for digestive system's diagnostics. Estimations were achieved in an advanced testing environment, which was built with use of the large collection of endoscopy movies received from Medical University in Gdańsk....
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Rozpoznawanie chorób układu pokarmowego z wykorzystaniem technik sztucznej inteligencji
PublicationCelem pracy jest przedstawienie i ocena algorytmów rozpoznawania chorób w filmach endoskopowych pod kątem możliwości ich zastosowania do budowy systemów automatycznego wykrywania chorób dla rzeczywistego wspomagania badań lekarskich. Porównano efektywność najnowszych algorytmów poprzez pomiar ich skuteczności w zaawansowanym środowisku testowym, zbudowanym w oparciu o materiały z filmów endoskopowych, opracowane we współpracy z...
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