Search Results for author: Michael A. Riegler

Found 45 papers, 25 papers with code

Imputation using training labels and classification via label imputation

no code implementations28 Nov 2023 Thu Nguyen, Tuan L. Vo, Pål Halvorsen, Michael A. Riegler

However, even though the label is usually available in the training data, the common practice of imputation usually only relies on the input and ignores the label.

Classification Imputation +1

Blockwise Principal Component Analysis for monotone missing data imputation and dimensionality reduction

no code implementations10 May 2023 Tu T. Do, Mai Anh Vu, Tuan L. Vo, Hoang Thien Ly, Thu Nguyen, Steven A. Hicks, Michael A. Riegler, Pål Halvorsen, Binh T. Nguyen

To address this issue, we propose a Blockwise principal component analysis Imputation (BPI) framework for dimensionality reduction and imputation of monotone missing data.

Dimensionality Reduction Imputation

Correlation visualization under missing values: a comparison between imputation and direct parameter estimation methods

no code implementations10 May 2023 Nhat-Hao Pham, Khanh-Linh Vo, Mai Anh Vu, Thu Nguyen, Michael A. Riegler, Pål Halvorsen, Binh T. Nguyen

Correlation matrix visualization is essential for understanding the relationships between variables in a dataset, but missing data can pose a significant challenge in estimating correlation coefficients.

Imputation

Mask-conditioned latent diffusion for generating gastrointestinal polyp images

no code implementations11 Apr 2023 Roman Macháček, Leila Mozaffari, Zahra Sepasdar, Sravanthi Parasa, Pål Halvorsen, Michael A. Riegler, Vajira Thambawita

Therefore, this study proposes a conditional DPM framework to generate synthetic GI polyp images conditioned on given generated segmentation masks.

Image Generation Image Segmentation +3

Understanding metric-related pitfalls in image analysis validation

no code implementations3 Feb 2023 Annika Reinke, Minu D. Tizabi, Michael Baumgartner, Matthias Eisenmann, Doreen Heckmann-Nötzel, A. Emre Kavur, Tim Rädsch, Carole H. Sudre, Laura Acion, Michela Antonelli, Tal Arbel, Spyridon Bakas, Arriel Benis, Matthew Blaschko, Florian Buettner, M. Jorge Cardoso, Veronika Cheplygina, Jianxu Chen, Evangelia Christodoulou, Beth A. Cimini, Gary S. Collins, Keyvan Farahani, Luciana Ferrer, Adrian Galdran, Bram van Ginneken, Ben Glocker, Patrick Godau, Robert Haase, Daniel A. Hashimoto, Michael M. Hoffman, Merel Huisman, Fabian Isensee, Pierre Jannin, Charles E. Kahn, Dagmar Kainmueller, Bernhard Kainz, Alexandros Karargyris, Alan Karthikesalingam, Hannes Kenngott, Jens Kleesiek, Florian Kofler, Thijs Kooi, Annette Kopp-Schneider, Michal Kozubek, Anna Kreshuk, Tahsin Kurc, Bennett A. Landman, Geert Litjens, Amin Madani, Klaus Maier-Hein, Anne L. Martel, Peter Mattson, Erik Meijering, Bjoern Menze, Karel G. M. Moons, Henning Müller, Brennan Nichyporuk, Felix Nickel, Jens Petersen, Susanne M. Rafelski, Nasir Rajpoot, Mauricio Reyes, Michael A. Riegler, Nicola Rieke, Julio Saez-Rodriguez, Clara I. Sánchez, Shravya Shetty, Maarten van Smeden, Ronald M. Summers, Abdel A. Taha, Aleksei Tiulpin, Sotirios A. Tsaftaris, Ben van Calster, Gaël Varoquaux, Manuel Wiesenfarth, Ziv R. Yaniv, Paul F. Jäger, Lena Maier-Hein

Validation metrics are key for the reliable tracking of scientific progress and for bridging the current chasm between artificial intelligence (AI) research and its translation into practice.

VISEM-Tracking, a human spermatozoa tracking dataset

1 code implementation6 Dec 2022 Vajira Thambawita, Steven A. Hicks, Andrea M. Storås, Thu Nguyen, Jorunn M. Andersen, Oliwia Witczak, Trine B. Haugen, Hugo L. Hammer, Pål Halvorsen, Michael A. Riegler

A manual assessment of sperm motility requires microscopy observation, which is challenging due to the fast-moving spermatozoa in the field of view.

Combining datasets to increase the number of samples and improve model fitting

1 code implementation11 Oct 2022 Thu Nguyen, Rabindra Khadka, Nhan Phan, Anis Yazidi, Pål Halvorsen, Michael A. Riegler

For many use cases, combining information from different datasets can be of interest to improve a machine learning model's performance, especially when the number of samples from at least one of the datasets is small.

Imputation Time Series Analysis +1

Towards the Neuroevolution of Low-level Artificial General Intelligence

1 code implementation27 Jul 2022 Sidney Pontes-Filho, Kristoffer Olsen, Anis Yazidi, Michael A. Riegler, Pål Halvorsen, Stefano Nichele

We evaluate a method to evolve a biologically-inspired artificial neural network that learns from environment reactions named Neuroevolution of Artificial General Intelligence (NAGI), a framework for low-level AGI.

Metrics reloaded: Recommendations for image analysis validation

1 code implementation3 Jun 2022 Lena Maier-Hein, Annika Reinke, Patrick Godau, Minu D. Tizabi, Florian Buettner, Evangelia Christodoulou, Ben Glocker, Fabian Isensee, Jens Kleesiek, Michal Kozubek, Mauricio Reyes, Michael A. Riegler, Manuel Wiesenfarth, A. Emre Kavur, Carole H. Sudre, Michael Baumgartner, Matthias Eisenmann, Doreen Heckmann-Nötzel, Tim Rädsch, Laura Acion, Michela Antonelli, Tal Arbel, Spyridon Bakas, Arriel Benis, Matthew Blaschko, M. Jorge Cardoso, Veronika Cheplygina, Beth A. Cimini, Gary S. Collins, Keyvan Farahani, Luciana Ferrer, Adrian Galdran, Bram van Ginneken, Robert Haase, Daniel A. Hashimoto, Michael M. Hoffman, Merel Huisman, Pierre Jannin, Charles E. Kahn, Dagmar Kainmueller, Bernhard Kainz, Alexandros Karargyris, Alan Karthikesalingam, Hannes Kenngott, Florian Kofler, Annette Kopp-Schneider, Anna Kreshuk, Tahsin Kurc, Bennett A. Landman, Geert Litjens, Amin Madani, Klaus Maier-Hein, Anne L. Martel, Peter Mattson, Erik Meijering, Bjoern Menze, Karel G. M. Moons, Henning Müller, Brennan Nichyporuk, Felix Nickel, Jens Petersen, Nasir Rajpoot, Nicola Rieke, Julio Saez-Rodriguez, Clara I. Sánchez, Shravya Shetty, Maarten van Smeden, Ronald M. Summers, Abdel A. Taha, Aleksei Tiulpin, Sotirios A. Tsaftaris, Ben van Calster, Gaël Varoquaux, Paul F. Jäger

The framework was developed in a multi-stage Delphi process and is based on the novel concept of a problem fingerprint - a structured representation of the given problem that captures all aspects that are relevant for metric selection, from the domain interest to the properties of the target structure(s), data set and algorithm output.

Instance Segmentation object-detection +2

Grid HTM: Hierarchical Temporal Memory for Anomaly Detection in Videos

1 code implementation30 May 2022 Vladimir Monakhov, Vajira Thambawita, Pål Halvorsen, Michael A. Riegler

In this paper, we explore the capabilities of the Hierarchical Temporal Memory (HTM) algorithm to perform anomaly detection in videos, as it has favorable properties such as noise tolerance and online learning which combats concept drift.

Anomaly Detection Video Anomaly Detection

Segmentation Consistency Training: Out-of-Distribution Generalization for Medical Image Segmentation

1 code implementation30 May 2022 Birk Torpmann-Hagen, Vajira Thambawita, Kyrre Glette, Pål Halvorsen, Michael A. Riegler

Generalizability is seen as one of the major challenges in deep learning, in particular in the domain of medical imaging, where a change of hospital or in imaging routines can lead to a complete failure of a model.

Data Augmentation Image Segmentation +4

Predicting tacrolimus exposure in kidney transplanted patients using machine learning

no code implementations9 May 2022 Andrea M. Storås, Anders Åsberg, Pål Halvorsen, Michael A. Riegler, Inga Strümke

Tacrolimus is one of the cornerstone immunosuppressive drugs in most transplantation centers worldwide following solid organ transplantation.

BIG-bench Machine Learning

PAANet: Progressive Alternating Attention for Automatic Medical Image Segmentation

no code implementations20 Nov 2021 Abhishek Srivastava, Sukalpa Chanda, Debesh Jha, Michael A. Riegler, Pål Halvorsen, Dag Johansen, Umapada Pal

We develop progressive alternating attention dense (PAAD) blocks, which construct a guiding attention map (GAM) after every convolutional layer in the dense blocks using features from all scales.

Decision Making Image Segmentation +3

Artificial Intelligence in Dry Eye Disease

no code implementations2 Sep 2021 Andrea M. Storås, Inga Strümke, Michael A. Riegler, Jakob Grauslund, Hugo L. Hammer, Anis Yazidi, Pål Halvorsen, Kjell G. Gundersen, Tor P. Utheim, Catherine Jackson

Although the term `AI' is commonly used, recent success in its applications to medicine is mainly due to advancements in the sub-field of machine learning, which has been used to automatically classify images and predict medical outcomes.

A Comprehensive Study on Colorectal Polyp Segmentation with ResUNet++, Conditional Random Field and Test-Time Augmentation

1 code implementation26 Jul 2021 Debesh Jha, Pia H. Smedsrud, Dag Johansen, Thomas de Lange, Håvard D. Johansen, Pål Halvorsen, Michael A. Riegler

To explore the generalization capability of ResUNet++ on different publicly available polyp datasets, so that it could be used in a real-world setting, we performed an extensive cross-dataset evaluation.

Medical Image Segmentation

Exploring Deep Learning Methods for Real-Time Surgical Instrument Segmentation in Laparoscopy

no code implementations5 Jul 2021 Debesh Jha, Sharib Ali, Nikhil Kumar Tomar, Michael A. Riegler, Dag Johansen, Håvard D. Johansen, Pål Halvorsen

Minimally invasive surgery is a surgical intervention used to examine the organs inside the abdomen and has been widely used due to its effectiveness over open surgery.

Medical Image Segmentation Segmentation

SinGAN-Seg: Synthetic training data generation for medical image segmentation

4 code implementations29 Jun 2021 Vajira Thambawita, Pegah Salehi, Sajad Amouei Sheshkal, Steven A. Hicks, Hugo L. Hammer, Sravanthi Parasa, Thomas de Lange, Pål Halvorsen, Michael A. Riegler

The pipeline is evaluated using qualitative and quantitative comparisons between real and synthetic data to show that the style transfer technique used in our pipeline significantly improves the quality of the generated data and our method is better than other state-of-the-art GANs to prepare synthetic images when the size of training datasets are limited.

Image Segmentation Medical Image Segmentation +3

A multi-centre polyp detection and segmentation dataset for generalisability assessment

3 code implementations8 Jun 2021 Sharib Ali, Debesh Jha, Noha Ghatwary, Stefano Realdon, Renato Cannizzaro, Osama E. Salem, Dominique Lamarque, Christian Daul, Michael A. Riegler, Kim V. Anonsen, Andreas Petlund, Pål Halvorsen, Jens Rittscher, Thomas de Lange, James E. East

To our knowledge, this is the most comprehensive detection and pixel-level segmentation dataset (referred to as \textit{PolypGen}) curated by a team of computational scientists and expert gastroenterologists.

Medical Image Segmentation

Meta-learning with implicit gradients in a few-shot setting for medical image segmentation

no code implementations6 Jun 2021 Rabindra Khadga, Debesh Jha, Steven Hicks, Vajira Thambawita, Michael A. Riegler, Sharib Ali, Pål Halvorsen

To our knowledge, this is the first work that exploits iMAML for medical image segmentation and explores the strength of the model on scenarios such as meta-training on unique and mixed instances of lesion datasets.

Few-Shot Learning Image Segmentation +3

NanoNet: Real-Time Polyp Segmentation in Video Capsule Endoscopy and Colonoscopy

3 code implementations22 Apr 2021 Debesh Jha, Nikhil Kumar Tomar, Sharib Ali, Michael A. Riegler, Håvard D. Johansen, Dag Johansen, Thomas de Lange, Pål Halvorsen

To utilize automated methods in clinical settings, it is crucial to design lightweight models with low latency such that they can be integrated with low-end endoscope hardware devices.

Colorectal Polyps Characterization Instrument Recognition +4

FANet: A Feedback Attention Network for Improved Biomedical Image Segmentation

1 code implementation31 Mar 2021 Nikhil Kumar Tomar, Debesh Jha, Michael A. Riegler, Håvard D. Johansen, Dag Johansen, Jens Rittscher, Pål Halvorsen, Sharib Ali

We propose a novel architecture called feedback attention network (FANet) that unifies the previous epoch mask with the feature map of the current training epoch.

Hard Attention Image Segmentation +2

Pyramid-Focus-Augmentation: Medical Image Segmentation with Step-Wise Focus

1 code implementation14 Dec 2020 Vajira Thambawita, Steven Hicks, Pål Halvorsen, Michael A. Riegler

Segmentation of findings in the gastrointestinal tract is a challenging but also an important task which is an important building stone for sufficient automatic decision support systems.

Image Segmentation Medical Image Segmentation +2

Real-Time Detection of Events in Soccer Videosusing 3D Convolutional Neural Networks

no code implementations2 Dec 2020 Olav A. Nergard Rongved, Steven A. Hicks, Vajira Thambawita, Hakon K. Stensland, Evi Zouganeli, Dag Johansen, Michael A. Riegler, Pal Halvorsen

The trade-off is a slightly lower precision compared to the current state-of-the-art, which has higher latency and performs better when a less accurate time estimation can be accepted.

Action Spotting

DoubleU-Net: A Deep Convolutional Neural Network for Medical Image Segmentation

4 code implementations8 Jun 2020 Debesh Jha, Michael A. Riegler, Dag Johansen, Pål Halvorsen, Håvard D. Johansen

The encouraging results, produced on various medical image segmentation datasets, show that DoubleU-Net can be used as a strong baseline for both medical image segmentation and cross-dataset evaluation testing to measure the generalizability of Deep Learning (DL) models.

Cell Segmentation Colorectal Polyps Characterization +6

Efficient Quantile Tracking Using an Oracle

no code implementations27 Apr 2020 Hugo L. Hammer, Anis Yazidi, Michael A. Riegler, Håvard Rue

The MSE is decomposed in tracking variance and bias and novel and efficient procedures to estimate these quantities are presented.

Kvasir-SEG: A Segmented Polyp Dataset

no code implementations16 Nov 2019 Debesh Jha, Pia H. Smedsrud, Michael A. Riegler, Pål Halvorsen, Thomas de Lange, Dag Johansen, Håvard D. Johansen

In this paper, we present Kvasir-SEG: an open-access dataset of gastrointestinal polyp images and corresponding segmentation masks, manually annotated by a medical doctor and then verified by an experienced gastroenterologist.

 Ranked #1 on Polyp Segmentation on Kvasir-SEG (DSC metric)

Image Segmentation Medical Image Segmentation +2

ResUNet++: An Advanced Architecture for Medical Image Segmentation

6 code implementations16 Nov 2019 Debesh Jha, Pia H. Smedsrud, Michael A. Riegler, Dag Johansen, Thomas de Lange, Pal Halvorsen, Havard D. Johansen

Accurate computer-aided polyp detection and segmentation during colonoscopy examinations can help endoscopists resect abnormal tissue and thereby decrease chances of polyps growing into cancer.

Colorectal Polyps Characterization Image Segmentation +3

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