Natasa Sladoje
Professor vid Institutionen för informationsteknologi; Vi3; Bildanalys
- Telefon:
- 018-471 49 12
- E-post:
- natasa.sladoje@it.uu.se
- Besöksadress:
- Hus 10, Regementsvägen 10
- Postadress:
- Box 524
751 20 UPPSALA
- Akademiska meriter:
- Docent
- ORCID:
- 0000-0002-6041-6310
Kort presentation
I am Professor in Computerized Image Analysis at the Dept. of Information Technology, Uppsala University. I am interested in development of image analysis methods, applications of machine and deep learning in image analysis, and applications of our developed tools in all fields of science and everyday life where image data is relevant and its automated analysis is required. For more details, read about MIDA-group which I am leading.
Nyckelord
- artificial intelligence
- image analysis
- deep learning
- biomedical image analysis
- data-driven life science
- information and communication technology (ict)
- image processing
- medical image analysis
- algorithm development
- discrete geometry
- pattern recognition
Forskning
Publikationer
Senaste publikationer
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Roadmap on deep learning for microscopy
Ingår i JPhys Photonics, 2026
- DOI för Roadmap on deep learning for microscopy
- Ladda ner fulltext (pdf) av Roadmap on deep learning for microscopy
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Ingår i Lung Cancer, 2026
- DOI för Incremental prognostic value of immune cell densities beyond clinical parameters in non-small cell lung cancer
- Ladda ner fulltext (pdf) av Incremental prognostic value of immune cell densities beyond clinical parameters in non-small cell lung cancer
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Isolated Channel Vision Transformers: From Single-Channel Pretraining to Multi-Channel Finetuning
Ingår i 36th British Machine Vision Conference 2025, {BMVC} 2025, s. 1-14, 2025
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Learn2Reg 2024: New Benchmark Datasets Driving Progress on New Challenges
Ingår i Machine Learning for Biomedical Imaging, s. 775-791, 2025
- DOI för Learn2Reg 2024: New Benchmark Datasets Driving Progress on New Challenges
- Ladda ner fulltext (pdf) av Learn2Reg 2024: New Benchmark Datasets Driving Progress on New Challenges
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Towards robust bubble detection in diverse microphysiological systems by machine learning
2025
Alla publikationer
Artiklar i tidskrift
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Roadmap on deep learning for microscopy
Ingår i JPhys Photonics, 2026
- DOI för Roadmap on deep learning for microscopy
- Ladda ner fulltext (pdf) av Roadmap on deep learning for microscopy
-
Ingår i Lung Cancer, 2026
- DOI för Incremental prognostic value of immune cell densities beyond clinical parameters in non-small cell lung cancer
- Ladda ner fulltext (pdf) av Incremental prognostic value of immune cell densities beyond clinical parameters in non-small cell lung cancer
-
Learn2Reg 2024: New Benchmark Datasets Driving Progress on New Challenges
Ingår i Machine Learning for Biomedical Imaging, s. 775-791, 2025
- DOI för Learn2Reg 2024: New Benchmark Datasets Driving Progress on New Challenges
- Ladda ner fulltext (pdf) av Learn2Reg 2024: New Benchmark Datasets Driving Progress on New Challenges
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Ingår i Computers in Biology and Medicine, s. 1-14, 2025
- DOI för Let it shine: Autofluorescence of Papanicolaou-stain improves AI-based cytological oral cancer detection
- Ladda ner fulltext (pdf) av Let it shine: Autofluorescence of Papanicolaou-stain improves AI-based cytological oral cancer detection
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UpStory: the uppsala storytelling dataset
Ingår i Frontiers in Robotics and AI, 2025
- DOI för UpStory: the uppsala storytelling dataset
- Ladda ner fulltext (pdf) av UpStory: the uppsala storytelling dataset
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Ingår i PLOS ONE, 2024
- DOI för Deep multiple instance learning versus conventional deep single instance learning for interpretable oral cancer detection
- Ladda ner fulltext (pdf) av Deep multiple instance learning versus conventional deep single instance learning for interpretable oral cancer detection
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Cross-modality sub-image retrieval using contrastive multimodal image representations
Ingår i Scientific Reports, 2024
- DOI för Cross-modality sub-image retrieval using contrastive multimodal image representations
- Ladda ner fulltext (pdf) av Cross-modality sub-image retrieval using contrastive multimodal image representations
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Ingår i Scientific Reports, 2023
- DOI för Automated detection, segmentation and measurement of major vessels and the trachea in CT pulmonary angiography
- Ladda ner fulltext (pdf) av Automated detection, segmentation and measurement of major vessels and the trachea in CT pulmonary angiography
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INSPIRE: Intensity and Spatial Information-Based Deformable Image Registration
Ingår i PLOS ONE, 2023
- DOI för INSPIRE: Intensity and Spatial Information-Based Deformable Image Registration
- Ladda ner fulltext (pdf) av INSPIRE: Intensity and Spatial Information-Based Deformable Image Registration
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Is image-to-image translation the panacea for multimodal image registration?: A comparative study
Ingår i PLOS ONE, 2022
- DOI för Is image-to-image translation the panacea for multimodal image registration?: A comparative study
- Ladda ner fulltext (pdf) av Is image-to-image translation the panacea for multimodal image registration?: A comparative study
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Ingår i Pattern Recognition Letters, s. 196-203, 2022
- DOI för Fast computation of mutual information in the frequency domain with applications to global multimodal image alignment
- Ladda ner fulltext (pdf) av Fast computation of mutual information in the frequency domain with applications to global multimodal image alignment
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Ingår i Scientific Data, 2020
- DOI för HISTOBREAST: a collection of brightfield microscopy images of Haematoxylin and Eosin stained breast tissue
- Ladda ner fulltext (pdf) av HISTOBREAST: a collection of brightfield microscopy images of Haematoxylin and Eosin stained breast tissue
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Ingår i Patterns (New York, N.Y.), 2020
- DOI för BIAFLOWS: A Collaborative Framework to Reproducibly Deploy and Benchmark Bioimage Analysis Workflows.
- Ladda ner fulltext (pdf) av BIAFLOWS: A Collaborative Framework to Reproducibly Deploy and Benchmark Bioimage Analysis Workflows.
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Stochastic Distance Transform: Theory, Algorithms and Applications
Ingår i Journal of Mathematical Imaging and Vision, s. 751-769, 2020
- DOI för Stochastic Distance Transform: Theory, Algorithms and Applications
- Ladda ner fulltext (pdf) av Stochastic Distance Transform: Theory, Algorithms and Applications
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Generalised deep learning framework for HEp-2 cell recognition using local binary pattern maps
Ingår i IET Image Processing, s. 1201-1208, 2020
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Ingår i Journal of Electronic Imaging (JEI), 2019
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Ingår i IEEE Transactions on Image Processing, s. 3584-3597, 2019
- DOI för Fast and Robust Symmetric Image Registration Based on Distances Combining Intensity and Spatial Information
- Ladda ner fulltext (pdf) av Fast and Robust Symmetric Image Registration Based on Distances Combining Intensity and Spatial Information
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Facilitating Ultrastructural Pathology through Automated Imaging and Analysis
Ingår i Journal of Pathology Informatics, s. 38-39, 2019
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Ingår i IEEE Access, s. 53080-53091, 2018
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Ingår i Journal of Electronic Imaging (JEI), 2016
- DOI för Restoration of images degraded by signal-dependent noise based on energy minimization: an empirical study
- Ladda ner fulltext (pdf) av Restoration of images degraded by signal-dependent noise based on energy minimization: an empirical study
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Estimation of Feret's diameter from pixel coverage representation of a shape
Ingår i Pattern Recognition Letters, s. 37-45, 2016
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Estimation of linear deformations of 2D and 3D fuzzy objects
Ingår i Pattern Recognition, s. 1391-1403, 2015
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Precise Euclidean distance transforms in 3D from voxel coverage representation
Ingår i Pattern Recognition Letters, s. 184-191, 2015
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Linear time distances between fuzzy sets with applications to pattern matching and classification
Ingår i IEEE Transactions on Image Processing, s. 126-136, 2014
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A new set distance and its application to shape registration
Ingår i Pattern Analysis and Applications, s. 141-152, 2014
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Coverage segmentation based on linear unmixing and minimization of perimeter and boundary thickness
Ingår i Pattern Recognition Letters, s. 728-738, 2012
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A Graph-based Framework for Sub-pixel Image Segmentation
Ingår i Theoretical Computer Science, s. 1338-1349, 2011
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Regularized image denoising based on spectral gradient optimization
Ingår i Inverse Problems, 2011
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Defuzzification of spatial fuzzy sets by feature distance minimization
Ingår i Image and Vision Computing, s. 127-141, 2011
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High-precision boundary length estimation by utilizing gray-level information
Ingår i IEEE Transactions on Pattern Analysis and Machine Intelligence, s. 357-363, 2009
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Representation and Reconstruction of Fuzzy Disks by Moments
Ingår i Fuzzy sets and systems (Print), s. 517-534, 2007
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Measurements of digitized objects with fuzzy borders in 2D and 3D
Ingår i Image and Vision Computing, s. 123-132, 2005
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Shape signaturs of fuzzy star-shaped sets based on distance from the centroid
Ingår i Pattern Recognition Letters, s. 735-746, 2005
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Efficiency of Characterizing Ellipses and Ellipsoids by Discrete Moments
Ingår i IEEE Transactions on Pattern Analysis and Machine Intelligence, s. 407-414, 2000
Artiklar, forskningsöversikt
Kapitel i böcker, delar av antologi
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Introduction: computer-assisted analysis of multimodal image data
Ingår i Imaging Modalities for Biological and Preclinical Research, Institute of Physics Publishing (IOPP), 2021
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Computer-assisted analysis of multimodal image data—perspectives and conclusion
Ingår i Imaging Modalities for Biological and Preclinical Research, Institute of Physics Publishing (IOPP), 2021
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The coverage model and its use in image processing
Ingår i Selected Topics on Image Processing and Cryptology, s. 39-117, Mathematical Institute of the Serbian Academy of Sciences and Arts, 2012
Konferensbidrag
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Isolated Channel Vision Transformers: From Single-Channel Pretraining to Multi-Channel Finetuning
Ingår i 36th British Machine Vision Conference 2025, {BMVC} 2025, s. 1-14, 2025
-
Towards robust bubble detection in diverse microphysiological systems by machine learning
2025
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A Comparison of Deep Learning Methods for Cell Detection in Digital Cytology
Ingår i Image Analysis, s. 264-277, 2025
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Ingår i Pattern Recognition, s. 408-421, 2024
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Ingår i Detection of Extremely Sparse Key Instances in Whole Slide Cytology Images via Self-supervised One-class Representation Learning, s. 408-421, 2024
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Are We Friends?: End-to-End Prediction of Child Rapport in Guided Play
Ingår i Computer Vision – ECCV 2024 Workshops, s. 380-392, 2024
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Ingår i Pattern Recognition and Image Analysis, s. 261-275, 2023
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2023
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Partial dimensional collapse in contrastive learning when using intermediate layers
2023
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Contrastive Learning of Equivariant Image Representations for Multimodal Deformable Registration
Ingår i 2023 IEEE 20th International Symposium on Biomedical Imaging (ISBI), 2023
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2023
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Rotationally Equivariant Representation Learning for Multimodal Images
2022
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2022
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DCNN based Oral Cancer Screening using Whole Slide Cytology Images: Effect of Increased Patch Size
2022
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Label-Free Reverse Image Search of Multimodal Microscopy Images
2022
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Re-Ranking Strategies in Cross-Modality Microscopy Retrieval
2022
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Efficient Algorithms for Global Multimodal Image Registration
2022
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Ingår i ICMI '22, s. 444-454, 2022
- DOI för End-to-End Learning and Analysis of Infant Engagement During Guided Play: Prediction and Explainability
- Ladda ner fulltext (pdf) av End-to-End Learning and Analysis of Infant Engagement During Guided Play: Prediction and Explainability
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End-to-end Multiple Instance Learning with Gradient Accumulation
Ingår i 2022 IEEE International Conference on Big Data (Big Data), s. 2742-2746, 2022
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Ingår i Companion Publication of the 2021 International Conference on Multimodal Interaction, s. 403-407, 2021
- DOI för Automatic Analysis of Infant Engagement during Play: An End-to-end Learning and Explainable AI Pilot Experiment
- Ladda ner fulltext (pdf) av Automatic Analysis of Infant Engagement during Play: An End-to-end Learning and Explainable AI Pilot Experiment
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The Effect of Within-Bag Sampling on End-to-End Multiple Instance Learning
Ingår i Proceedings of the 12th International Symposium on Image and Signal Processing and Analysis (ISPA), s. 183-188, 2021
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Contrastive Learning for Equivariant Multimodal Image Representations
2021
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Image-to-Image Translation in Multimodal Image Registration: How Well Does It Work?
2021
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2021
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Registration of Multimodal Microscopy Images using CoMIR – learned structural image representations
2021
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Comir: Contrastive multimodal image representation for registration
2021
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CoMIR: Contrastive Multimodal Image Representation for Registration
Ingår i NeurIPS - 34th Conference on Neural Information Processing Systems, 2020
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Ingår i 2020 IEEE 17th International Symposium on Biomedical Imaging (ISBI), s. 517-521, 2020
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Ingår i 4th NEUBIAS Conference, Bordeaux, France, 2020
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Ingår i 4th NEUBIAS Conference, Bordeaux, France, 2020
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A Deep Learning Based Pipeline for Efficient Oral Cancer Screening on Whole Slide Images
Ingår i Image Analysis and Recognition, s. 249-261, 2020
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Towards automated multiscale Glomeruli detection and analysis in TEM by fusion of CNN and LBP maps
Ingår i 3rd NEUBIAS Conference, 2019
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On the Effectiveness of Generative Adversarial Networks as HEp-2 Image Augmentation Tool
Ingår i Scandinavian Conference on Image Analysis, s. 439-451, 2019
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Ingår i 3rd NEUBIAS Conference, Luxembourg, 2-8 February 2019, 2019
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Ingår i Computer Vision, s. 465-475, 2019
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Oral Cancer Detection: A Comparison of Texture Focused Deep Learning Approaches
Ingår i Proceedings of the Swedish Society for Automated Image Analysis (SSBA), 2019
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Robust Symmetric Affine Image Registration
Ingår i Swedish Symposium on Image Analysis, 2019
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Stochastic Distance Functions with Applications in Object Detection and Image Segmentation
Ingår i Swedish Symposium on Image Analysis, 2019
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Ingår i Discrete Geometry for Computer Imagery, s. 75-86, 2019
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Texture-based oral cancer detection: A performance analysis of deep learning approaches.
Ingår i 3rd NEUBIAS Conference, 2019
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Ingår i Swedish Symposium on Deep Learning, 2018
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Denoising of Short Exposure Transmission Electron Microscopy Images using CNN
Ingår i Swedish Symposium on Image Analysis, 2018
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Denoising of short exposure transmission electron microscopy images for ultrastructural enhancement
Ingår i Proc. 15th International Symposium on Biomedical Imaging, s. 921-925, 2018
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Ingår i Swedish Symposium on Image Analysis, 2018
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Ingår i Image Analysis, s. 362-374, 2017
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Ingår i Swedish Symposium on Image Analysis, 2017
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Ingår i Swedish Symposium on Image Analysis, 2017
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Ingår i Mathematical Morphology and its Applications to Signal and Image Processing, s. 395-407, 2017
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Ingår i In Proc. of the 18th International Workshop on Combinatorial Image Analysis, IWCIA2017, s. 243-255, 2017
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Ingår i Image Analysis, s. 407-418, 2017
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Ingår i Proceedings of the Swedish Society for Automated Image Analysis, s. 137-141, 2016
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Signature of a Shape Based on Its Pixel Coverage Representation
Ingår i Discrete Geometry for Computer Imagery, DGCI 2016. Lecture Notes in Computer Science, Vol. 9647, pp. 181-193, Springer 2016, s. 181-193, 2016
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Ingår i 2016 Ieee 13Th International Symposium On Biomedical Imaging (ISBI), s. 123-127, 2016
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Ingår i Biomedical Imaging (ISBI), 2016 IEEE 13th International Symposium on, s. 386-390, 2016
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Single image super-resolution reconstruction in presence of mixed Poisson-Gaussian noise
Ingår i 2016 SIXTH INTERNATIONAL CONFERENCE ON IMAGE PROCESSING THEORY, TOOLS AND APPLICATIONS (IPTA), 2016
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Coverage segmentation of 3D thin structures
Ingår i Proc. 5th International Conference on Image Processing Theory, Tools and Applications, s. 23-28, 2015
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Microscopy image enhancement for cost-effective cervical cancer screening
Ingår i Image Analysis, s. 440-451, 2015
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High-resolution reconstruction by feature distance minimization from multiple views of an object
Ingår i Proc. 5th International Conference on Image Processing Theory, Tools and Applications, s. 29-34, 2015
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αLBP – a novel member of the Local Binary Pattern family based on α-cutting
Ingår i Proc. 9th International Symposium on Image and Signal Processing and Analysis, s. 13-18, 2015
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Exact linear time Euclidean distance transforms of grid line sampled shapes
Ingår i Mathematical Morphology and its Applications to Signal and Image Processing, s. 645-656, 2015
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Optimizing optics and imaging for pattern recognition based screening tasks
Ingår i Proc. 22nd International Conference on Pattern Recognition, s. 3333-3338, 2014
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An evaluation of potential functions for regularized image deblurring
Ingår i Image Analysis and Recognition, s. 150-158, 2014
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Coverage segmentation of thin structures by linear unmixing and local centre of gravity attraction
Ingår i Proc. 8th International Symposium on Image and Signal Processing and Analysis, s. 83-88, 2013
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Distance measures between digital fuzzy objects and their applicability in image processing
Ingår i Combinatorial Image Analysis, s. 385-397, 2011
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Precise Estimation of the Projection of a Shape from a Pixel Coverage Representation
Ingår i Proceedings of the 7th IEEE International Symposium on Image and Signal Processing and Analysis (ISPA), s. 569-574, 2011
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The Sum of minimal distances as a useful distance measure for image registration
Ingår i Proceedings SSBA 2010, s. 55-58, 2010
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De-noising of SRµCT Fiber Images by Total Variation Minimization
Ingår i Proceedings of the 20th International Conference on Pattern Recognition (ICPR10), s. 4621-4624, 2010
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Estimation of linear deformations of 3D objects
Ingår i Proceedings of 2010 IEEE 17th International Conference on Image Processing, s. 153-156, 2010
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On set distances and their application to image registration
Ingår i Proc. 6th International Symposium on Image and Signal Processing and Analysis, s. 449-454, 2009
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Improved Quantification of Bone Remodelling by Utilizing Fuzzy Based Segmentation
Ingår i Image Analysis, s. 750-759, 2009
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Recovering Affine Deformations of Fuzzy Shapes
Ingår i 16th Scandinavian Conference on Image Analysis, s. 735-744, 2009
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Pixel Coverage Segmentation for Improved Feature Estimation
Ingår i 15th International Conference on Image Analysis and Processing, s. 929-938, 2009
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Deterministic Defuzzification based on Spectral Projected Gradient Optimization
Ingår i 30th Symposium of the German Association for Pattern Recognition (DAGM), s. 476-485, 2008
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Defuzzification by Feature Distance Minimization Based on DC Programming
Ingår i 5th International Symposium on Image and Signal Processing and Analysis, 2007, s. 373-378, 2007
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Feature Based Defuzzification at Increased Spatial Resolution
Ingår i Combinatorial Image Analysis, s. 131-143, 2006
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Feature Based Defuzzification in Z² and Z³ Using a Scale Space Approach
Ingår i Discrete Geometry for Computer Imagery 13th International Conference, DGCI 2006, Szeged, Hungary, October 25-27, 2006. Proceedings, s. 379-390, 2006
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Estimation of moments of digitized objects with fuzzy borders
Ingår i Proc. of 13th International Conference on Image Analysis and Processing, s. 188-195, 2005
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Defuzzification of discrete objects by optimizing area and perimeter similarity
Ingår i Proceedings of International Conference on Pattern Recognition (ICPR 2004), s. 526-629, 2004
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Shape Description of Fuzzy Segmented Objects: Area and Perimeter Estimators
Ingår i Proceedings of SSAB (Swedish Society for Automated Image Analysis) Symposium on Image Analysis, Stockholm, Sweden, s. 17-20, 2003
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Perimeter and Area Estimations of Digitized Objects with Fuzzy Borders
Ingår i Proceedings of 11th International Conference on Discrete Geometry for Computer Imagery (DGCI 2003), s. 368-377, 2003
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Measuring perimeter and area in low resolution images using a fuzzy approach
Ingår i Proceedings of 13th Scandinavian Conference on Image Analysis (SCIA 2003), s. 853-860, 2003
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The Reconstruction of the Digital Hyperbola Segment from Its Code
Ingår i International Conference on Discrete Geometry for Computer Imagery, s. 159-170, 2000
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A characterization of digital disks by discrete moments
Ingår i International Conference on Computer Analysis of Images and Patterns, s. 582-589, 1997
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Ellipses estimation from their digitization
Ingår i International Conference on Discrete Geometry for Computer Imagery, s. 187-198, 1997
Manuskript (preprint)
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Is Image-to-Image Translation the Panacea for Multimodal Image Registration? A Comparative Study
2021
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2021
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A Deep Learning based Pipeline for Efficient Oral Cancer Screening on Whole Slide Images
2019
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Fast and Robust Symmetric Image Registration Based on Intensity and Spatial Information
2018
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Sensitive key instance detection: Helping a cytotechnologist to find a needle in a haystack
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BIAFLOWS: A collaborative framework to benchmark bioimage analysis workflows
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- DOI för From Cells to Survival: Hierarchical Analysis of Cell Inter-Relations in Multiplex Microscopy for Lung Cancer Prognosis
- Ladda ner fulltext (pdf) av From Cells to Survival: Hierarchical Analysis of Cell Inter-Relations in Multiplex Microscopy for Lung Cancer Prognosis
Proceedings (redaktörskap)
Rapporter
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Perimeter estimation based on grey level object representation
2008
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Review of scientific papers on fuzzy shape analysis
2005
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A Brief Review on Benno Artman's "Euclid - The Creation of Mathematics"
2005
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A report on 10th Summer School on Image Processing
2002
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Reviews on Scientific Papers on Application of Fuzzy Set Theory in Image Segmentation
2002