Publications

Analysis of Age Invariant Face Recognition Efficiency Using Face Feature Vectors

Hast, Anders; Zhou, Yijie; Lai, Congting; Blohm, Ivar

Part of Robotics, Computer Vision and Intelligent Systems, p. 47-65, 2024

ASE-Net for Segmentation of Post-operative Glioblastoma and Patient-specific Fine-tuning for Segmentation Refinement of Follow-up MRI Scans

Kundu, Swagata; Banerjee, Subhashis; Breznik, Eva; Toumpanakis, Dimitrios et al.

Part of SN computer science, 2024

• DOI for ASE-Net for Segmentation of Post-operative Glioblastoma and Patient-specific Fine-tuning for Segmentation Refinement of Follow-up MRI Scans

Deep multiple instance learning versus conventional deep single instance learning for interpretable oral cancer detection

Koriakina, Nadezhda; Sladoje, Nataša; Bašić, Vladimir; Lindblad, Joakim

Part of PLOS ONE, 2024

• DOI for Deep multiple instance learning versus conventional deep single instance learning for interpretable oral cancer detection

Efficient High-Resolution Template Matching with Vector Quantized Nearest Neighbour Fields

Gupta, Ankit; Sintorn, Ida-Maria

Part of Pattern Recognition, 2024

• DOI for Efficient High-Resolution Template Matching with Vector Quantized Nearest Neighbour Fields
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Handwritten Stenography Recognition and the LION Dataset

Heil, Raphaela; Nauwerck, Malin

Part of International Journal on Document Analysis and Recognition, 2024

• DOI for Handwritten Stenography Recognition and the LION Dataset

Multi-level Residual Dual Attention Network for Major Cerebral Arteries Segmentation in MRA towards Diagnosis of Cerebrovascular Disorders

Pal, Subhash Chandra; Toumpanakis, Dimitrios; Wikström, Johan; Ahuja, Chirag Kamal et al.

Part of IEEE Transactions on Nanobioscience, p. 167-175, 2024

• DOI for Multi-level Residual Dual Attention Network for Major Cerebral Arteries Segmentation in MRA towards Diagnosis of Cerebrovascular Disorders

A Study of Augmentation Methods for Handwritten Stenography Recognition

Heil, Raphaela; Breznik, Eva

2023

• DOI for A Study of Augmentation Methods for Handwritten Stenography Recognition

Age-Invariant Face Recognition using Face Feature Vectors and Embedded Prototype Subspace Classifiers

Hast, Anders

Part of Advanced Concepts for Intelligent Vision Systems, p. 88-99, 2023

• DOI for Age-Invariant Face Recognition using Face Feature Vectors and Embedded Prototype Subspace Classifiers

Can Representation Learning for Multimodal Image Registration be Improved by Supervision of Intermediate Layers?

Wetzer, Elisabeth; Lindblad, Joakim; Sladoje, Nataša

Part of IbPRIA 2023: Pattern Recognition and Image Analysis, p. 261-275, 2023

• DOI for Can Representation Learning for Multimodal Image Registration be Improved by Supervision of Intermediate Layers?

Cell Segmentation of in situ Transcriptomics Data using Signed Graph Partitioning

Andersson, Axel; Behanova, Andrea; Wählby, Carolina; Malmberg, Filip

Part of Graph-Based Representations in Pattern Recognition, p. 139-148, 2023

• DOI for Cell Segmentation of in situ Transcriptomics Data using Signed Graph Partitioning

Consensus Ranking for Efficient Face Image Retrieval: A Novel Method for Maximising Precision and Recall

Hast, Anders

Part of Image Analysis and Processing – ICIAP 2023, p. 159-170, 2023

• DOI for Consensus Ranking for Efficient Face Image Retrieval: A Novel Method for Maximising Precision and Recall

Deep Curriculum Learning for Follow-up MRI Registration in Glioblastoma

Banerjee, Subhashis; Toumpanakis, Dimitrios; Dhara, Ashis; Wikström, Johan et al.

Part of Medical Imaging 2023, 2023

• DOI for Deep Curriculum Learning for Follow-up MRI Registration in Glioblastoma

Dental hygienists and dentists as providers of brush biopsies for oral mucosa screening

Edman, Kristina; Runow Stark, Christina; Basic, Vladimir; Lindblad, Joakim et al.

Part of International Journal of Dental Hygiene, p. 524-532, 2023

• DOI for Dental hygienists and dentists as providers of brush biopsies for oral mucosa screening
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INSPIRE: Intensity and Spatial Information-Based Deformable Image Registration

Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Nataša

Part of PLOS ONE, 2023

• DOI for INSPIRE: Intensity and Spatial Information-Based Deformable Image Registration
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Introducing spatial context in patch-based deep learning for semantic segmentation in whole body MRI

Breznik, Eva; Kullberg, Joel; Ahlström, Håkan; Strand, Robin

Part of Proceedings of the 22nd Scandinavian conference on image analysis (SCIA), 2023

Label-free deep learning-based species classification of bacteria imaged by phase-contrast microscopy

Hallström, Erik; Kandavalli, Vinodh; Ranefall, Petter; Elf, Johan et al.

Part of PloS Computational Biology, 2023

• DOI for Label-free deep learning-based species classification of bacteria imaged by phase-contrast microscopy
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Lifelong Learning with Dynamic Convolutions for Glioma: Segmentation from Multi-Modal MRI

Banerjee, Subhashis; Strand, Robin

Part of Medical Imaging 2023, 2023

Partial dimensional collapse in contrastive learning when using intermediate layers

Wetzer, Elisabeth; Lindblad, Joakim; Sladoje, Nataša

2023

Refusion: Enabling Large-Size Realistic Image Restoration With Latent-Space Diffusion Models

Luo, Ziwei; Gustafsson, Fredrik K.; Zhao, Zheng; Sjölund, Jens et al.

Part of 2023 IEEE/CVF Conference on Computer Vision and Pattern Recognition Workshops (CVPRW), p. 1680-1691, 2023

• DOI for Refusion: Enabling Large-Size Realistic Image Restoration With Latent-Space Diffusion Models

Sex Classification of Face Images using Embedded Prototype Subspace Classifiers.

Hast, Anders

Part of Proceedings of the 31th International Conference in Central Europe on Computer Graphics, Visualization and Computer Vision WSCG 2023, p. 43-52, 2023

A Hitchhiker's guide through the bio‐image analysis software universe

Haase, Robert; Fazeli, Elnaz; Legland, David; Doube, Michael et al.

Part of FEBS Letters, p. 2472-2485, 2022

• DOI for A Hitchhiker's guide through the bio‐image analysis software universe
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A Spatially Detailed Approach to the Assessment of Rooftop Solar Energy Potential based on LiDAR Data

Aslani, Mohammad; Seipel, Stefan

Part of GISTAM, p. 56-63, 2022

• DOI for A Spatially Detailed Approach to the Assessment of Rooftop Solar Energy Potential based on LiDAR Data

AI based prostate analysis system trained without human supervision to predict patient outcome from tissue samples

Walhagen, Peter; Bengtsson, Ewert; Lennartz, Maximilian; Sauter, Guido et al.

Part of Journal of Pathology Informatics, 2022

• DOI for AI based prostate analysis system trained without human supervision to predict patient outcome from tissue samples

An image registration method for voxel-wise analysis of whole-body oncological PET-CT

Jönsson, Hanna; Ekström, Simon; Strand, Robin; Pedersen, Mette A et al.

Part of Scientific Reports, 2022

• DOI for An image registration method for voxel-wise analysis of whole-body oncological PET-CT
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Computational analysis of subscapularis tears and pectoralis major transfers on muscular activity

Pean, Fabien; Favre, Philippe; Göksel, Orcun

Part of Clinical Biomechanics, 2022

• DOI for Computational analysis of subscapularis tears and pectoralis major transfers on muscular activity
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Cross-Sim-NGF: FFT-Based Global Rigid Multimodal Alignment of Image Volumes using Normalized Gradient Fields

Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Natasa

2022

• DOI for Cross-Sim-NGF: FFT-Based Global Rigid Multimodal Alignment of Image Volumes using Normalized Gradient Fields

DCNN based Oral Cancer Screening using Whole Slide Cytology Images: Effect of Increased Patch Size

Chatterjee, Swarnadip; Sladoje, Nataša; Lindblad, Joakim

2022

Early Detection of Oral Potentially Malignant Disorders: A Review on Prospective Screening Methods with Regard to Global Challenges

Haj-Hosseini, Neda; Lindblad, Joakim; Hasséus, Bengt; Kumar, Vinay Vijaya et al.

Part of Journal of Maxillofacial and Oral Surgery, p. 23-32, 2022

• DOI for Early Detection of Oral Potentially Malignant Disorders: A Review on Prospective Screening Methods with Regard to Global Challenges
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Efficient Algorithms for Global Multimodal Image Registration

Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Natasa

2022

Efficient Parallel Thinning of 3d Objects on the Body-centered Cubic Lattice

Brunner, David; Brunnett, Guido; Kronfeld, Thomas; Strand, Robin

Part of Computer-Aided Design, 2022

• DOI for Efficient Parallel Thinning of 3d Objects on the Body-centered Cubic Lattice

End-to-end Multiple Instance Learning with Gradient Accumulation

Andersson, Axel; Koriakina, Nadezhda; Sladoje, Nataša; Lindblad, Joakim

Part of 2022 IEEE International Conference on Big Data (Big Data), p. 2742-2746, 2022

• DOI for End-to-end Multiple Instance Learning with Gradient Accumulation

Fast computation of mutual information in the frequency domain with applications to global multimodal image alignment

Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Natasa

Part of Pattern Recognition Letters, p. 196-203, 2022

• DOI for Fast computation of mutual information in the frequency domain with applications to global multimodal image alignment
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Hierarchical graph representations in digital pathology

Pati, Pushpak; Jaume, Guillaume; Foncubierta-Rodriguez, Antonio; Feroce, Florinda et al.

Part of Medical Image Analysis, 2022

• DOI for Hierarchical graph representations in digital pathology
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Improved geometric accuracy of whole body diffusion-weighted imaging at 1.5T and 3T using reverse polarity gradients

Sjöholm, Therese; Kullberg, Joel; Strand, Robin; Engström, M. et al.

Part of Scientific Reports, 2022

• DOI for Improved geometric accuracy of whole body diffusion-weighted imaging at 1.5T and 3T using reverse polarity gradients
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Is brightfield all you need for MoA prediction?

Gupta, Ankit; Harrison, Philip J; Wieslander, Håkan; Rietdijk, Jonne et al.

2022

Magnitude of Semicircle Tiles in Fourier-space: A Handcrafted Feature Descriptor for Word Recognition using Embedded Prototype Subspace Classifiers

Hast, Anders

Part of Journal of WSCG, p. 82-90, 2022

• DOI for Magnitude of Semicircle Tiles in Fourier-space: A Handcrafted Feature Descriptor for Word Recognition using Embedded Prototype Subspace Classifiers

MIMIR: Deep Regression for Automated Analysis of UK Biobank MRI Scans

Langner, Taro; Martínez Mora, Andrés; Strand, Robin; Ahlström, Håkan et al.

Part of Radiology: Artificial Intelligence, 2022

• DOI for MIMIR: Deep Regression for Automated Analysis of UK Biobank MRI Scans

Patient specific deep learning based segmentation for magnetic resonance guided prostate radiotherapy

Fransson, Samuel; Tilly, David; Strand, Robin

Part of Physics and Imaging in Radiation Oncology, p. 38-42, 2022

• DOI for Patient specific deep learning based segmentation for magnetic resonance guided prostate radiotherapy
• Download full text (pdf) of Patient specific deep learning based segmentation for magnetic resonance guided prostate radiotherapy

Probabilistic spatial analysis in quantitative microscopy with uncertainty-aware cell detection using deep Bayesian regression

Gomariz, Alvaro; Portenier, Tiziano; Nombela-Arrieta, Cesar; Göksel, Orcun

Part of Science Advances, 2022

• DOI for Probabilistic spatial analysis in quantitative microscopy with uncertainty-aware cell detection using deep Bayesian regression

Restoration of Archival Images Using NeuralNetworks

Heil, Raphaela; Wahlberg, Fredrik

Part of Proceedings of the 6th Digital Humanities in the Nordic and Baltic Countries Conference (DHNB 2022), p. 79-93, 2022

Serum levels of perfluoroalkyl substances (PFAS) and body composition - A cross-sectional study in a middle-aged population

Lind, P. Monica; Lind, Lars; Salihovic, Samira; Ahlström, Håkan et al.

Part of Environmental Research, p. 112677, 2022

• DOI for Serum levels of perfluoroalkyl substances (PFAS) and body composition - A cross-sectional study in a middle-aged population
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Spectral Ultrasound Imaging of Speed-of-Sound and Attenuation Using an Acoustic Mirror

Chintada, Bhaskara Rao; Rau, Richard; Göksel, Orcun

Part of Frontiers in Physics, 2022

• DOI for Spectral Ultrasound Imaging of Speed-of-Sound and Attenuation Using an Acoustic Mirror
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Topology-Aware Learning for Volumetric Cerebrovascular Segmentation

Banerjee, Subhashis; Toumpanakis, Dimitrios; Dhara, Ashis Kumar; Wikström, Johan et al.

Part of 2022 IEEE International Symposium on Biomedical Imaging (IEEE ISBI 2022), p. 1-4, 2022

• DOI for Topology-Aware Learning for Volumetric Cerebrovascular Segmentation

Towards Better Guided Attention and Human Knowledge Insertion in Deep Convolutional Neural Networks

Gupta, Ankit; Sintorn, Ida-Maria

2022

Unsupervised Domain Adaptation with Contrastive Learning for OCT Segmentation

Gomariz, Alvaro; Lu, Huanxiang; Li, Yun Yvonna; Albrecht, Thomas et al.

Part of Medical Image Computing and Computer Assisted Intervention, MICCAI 2022, pt viii, p. 351-361, 2022

• DOI for Unsupervised Domain Adaptation with Contrastive Learning for OCT Segmentation

Assessing Damage – Can the Crowd Interpret Colour and 3D Information?

Seffers, Gaëlle; Åhlén, Juia; Seipel, Stefan; Ooms, Kristien

Part of Cartographic Journal, p. 69-82, 2021

• DOI for Assessing Damage – Can the Crowd Interpret Colour and 3D Information?

Contrastive Learning for Equivariant Multimodal Image Representations

Wetzer, Elisabeth; Pielawski, Nicolas; Breznik, Eva; Öfverstedt, Johan et al.

2021

CytoBrowser: a browser-based collaborative annotation platform for whole slide images

Rydell, Christopher; Lindblad, Joakim

Part of F1000 Research, 2021

• DOI for CytoBrowser: a browser-based collaborative annotation platform for whole slide images

Does visual saliency affect decision-making?

Milutinovic, Goran; Ahonen-Jonnarth, Ulla; Seipel, Stefan

Part of Journal of Visualization, p. 1267-1285, 2021

• DOI for Does visual saliency affect decision-making?
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Efficient and decision boundary aware instance selection for support vector machines

Aslani, Mohammad; Seipel, Stefan

Part of Information Sciences, p. 579-598, 2021

• DOI for Efficient and decision boundary aware instance selection for support vector machines
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Evaluation of in-house, haptic assisted surgical planning for virtual reduction of complex mandibular fractures

Nilsson, Johanna; Nysjö, Fredrik; Nyström, Ingela; Kämpe, Johan et al.

Part of International Journal of Computer Assisted Radiology and Surgery, p. 1059-1068, 2021

• DOI for Evaluation of in-house, haptic assisted surgical planning for virtual reduction of complex mandibular fractures
• Download full text (pdf) of Evaluation of in-house, haptic assisted surgical planning for virtual reduction of complex mandibular fractures

Fast Computation of Mutual Information with Application to Global Multimodal Image Alignment of Micrographs

Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Natasa

2021

Icke-invasiv kontroll av cellförändringar i munslemhinnan

Hirsch, Jan-Michaél; Haj-Hosseini, Neda; Krüger Weiner, Carina; Hasséus, Bengt et al.

Part of Tandläkartidningen, p. 48-55, 2021

ImageJ and CellProfiler: Complements in Open‐Source Bioimage Analysis

Dobson, Ellen T.A.; Cimini, Beth; Klemm, Anna H; Wählby, Carolina et al.

Part of Current Protocols in Microbiology, 2021

• DOI for ImageJ and CellProfiler: Complements in Open‐Source Bioimage Analysis

Image-to-Image Translation in Multimodal Image Registration: How Well Does It Work?

Lu, Jiahao; Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Natasa

2021

Learning Cell Nuclei Segmentation Using Labels Generated with Classical Image Analysis Methods

Matuszewski, Damian J.; Ranefall, Petter

Part of Proceedings of the WSCG 2021, p. 335-338, 2021

• DOI for Learning Cell Nuclei Segmentation Using Labels Generated with Classical Image Analysis Methods

Learning Whole-Slide Segmentation from Inexact and Incomplete Labels Using Tissue Graphs

Anklin, Valentin; Pati, Pushpak; Jaume, Guillaume; Bozorgtabar, Behzad et al.

Part of Medical Image Computing and Computer Assisted Intervention, p. 636-646, 2021

• DOI for Learning Whole-Slide Segmentation from Inexact and Incomplete Labels Using Tissue Graphs

Strikethrough Removal from Handwritten Words Using CycleGANs

Heil, Raphaela; Vats, Ekta; Hast, Anders

Part of Document Analysis and Recognition -- ICDAR 2021, p. 572-586, 2021

• DOI for Strikethrough Removal from Handwritten Words Using CycleGANs

The Effect of Within-Bag Sampling on End-to-End Multiple Instance Learning

Koriakina, Nadezhda; Sladoje, Natasa; Lindblad, Joakim

Part of Proceedings of the 12th International Symposium on Image and Signal Processing and Analysis (ISPA), p. 183-188, 2021

• DOI for The Effect of Within-Bag Sampling on End-to-End Multiple Instance Learning

Towards automatic protein co-expression quantification in immunohistochemical TMA slides

Solorzano, Leslie; Pereira, Carla; Martins, Diana; Almeida, Raquel et al.

Part of IEEE journal of biomedical and health informatics, p. 393-402, 2021

• DOI for Towards automatic protein co-expression quantification in immunohistochemical TMA slides
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Word Recognition using Embedded Prototype Subspace Classifiers on a new Imbalanced Dataset

Hast, Anders; Vats, Ekta

Part of Journal of WSCG, p. 39-47, 2021

• DOI for Word Recognition using Embedded Prototype Subspace Classifiers on a new Imbalanced Dataset

A Deep Learning Based Pipeline for Efficient Oral Cancer Screening on Whole Slide Images

Lu, Jiahao; Sladoje, Natasa; Runow Stark, Christina; Darai Ramqvist, Eva et al.

Part of Image Analysis and Recognition, p. 249-261, 2020

• DOI for A Deep Learning Based Pipeline for Efficient Oral Cancer Screening on Whole Slide Images

A fast instance selection method for support vector machines in building extraction

Aslani, Mohammad; Seipel, Stefan

Part of Applied Soft Computing, 2020

• DOI for A fast instance selection method for support vector machines in building extraction
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Adaptive Mathematical Morphology on Irregularly Sampled Signals in Two Dimensions

Asplund, Teo; Luengo Hendriks, Cris L.; Thurley, Matthew J.; Strand, Robin

Part of Mathematical Morphology - Theory and Applications, p. 108-126, 2020

• DOI for Adaptive Mathematical Morphology on Irregularly Sampled Signals in Two Dimensions
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BIAFLOWS: A Collaborative Framework to Reproducibly Deploy and Benchmark Bioimage Analysis Workflows.

Rubens, Ulysse; Mormont, Romain; Paavolainen, Lassi; Bäcker, Volker et al.

Part of Patterns (New York, N.Y.), 2020

• DOI for BIAFLOWS: A Collaborative Framework to Reproducibly Deploy and Benchmark Bioimage Analysis Workflows.
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Bootstrapping Weakly Supervised Segmentation-free Word Spotting through HMM-based Alignment

Wilkinson, Tomas; Nettelblad, Carl

Part of 2020 17th International Conference on Frontiers in Handwriting Recognition (ICFHR), p. 49-54, 2020

• DOI for Bootstrapping Weakly Supervised Segmentation-free Word Spotting through HMM-based Alignment

Clustered Grid Cell Data Structure for Isosurface Rendering

Nysjö, Fredrik

Part of Journal of WSCG, p. 9-17, 2020

• DOI for Clustered Grid Cell Data Structure for Isosurface Rendering

CoMIR: Contrastive Multimodal Image Representation for Registration

Pielawski, Nicolas; Wetzer, Elisabeth; Öfverstedt, Johan; Lu, Jiahao et al.

Part of NeurIPS - 34th Conference on Neural Information Processing Systems, 2020

Cross-modal Representation Learning for Efficient Registration of Multiphoton and Brightfield Microscopy Images of Skin Tissue

Wetzer, Elisabeth; Pielawski, Nicolas; Öfverstedt, Johan; Jiahao, Lu et al.

Part of 4th NEUBIAS Conference, Bordeaux, France, 2020

Large-scale Inference of Liver Fat with Neural Networks on UK Biobank Body MRI

Langner, Taro; Strand, Robin; Ahlström, Håkan; Kullberg, Joel

Part of International Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI) 2020, p. 602-611, 2020

• DOI for Large-scale Inference of Liver Fat with Neural Networks on UK Biobank Body MRI

RayCaching: Amortized Isosurface Rendering for Virtual Reality

Nysjö, Fredrik; Malmberg, Filip; Nyström, Ingela

Part of Computer graphics forum (Print), p. 220-230, 2020

• DOI for RayCaching: Amortized Isosurface Rendering for Virtual Reality
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Stochastic Distance Transform: Theory, Algorithms and Applications

Öfverstedt, Johan; Lindblad, Joakim; Sladoje, Natasa

Part of Journal of Mathematical Imaging and Vision, p. 751-769, 2020

• DOI for Stochastic Distance Transform: Theory, Algorithms and Applications
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Two Polynomial Time Graph Labeling Algorithms Optimizing Max-Norm-Based Objective Functions

Malmberg, Filip; Ciesielski, Krzysztof Chris Ciesielski

Part of Journal of Mathematical Imaging and Vision, p. 737-750, 2020

• DOI for Two Polynomial Time Graph Labeling Algorithms Optimizing Max-Norm-Based Objective Functions

Uncovering hidden reasoning of convolutional neural networks in biomedical image classification by using attribution methods

Koriakina, Nadezhda; Sladoje, Natasa; Wetzer, Elisabeth; Lindblad, Joakim

Part of 4th NEUBIAS Conference, Bordeaux, France, 2020

Visualisation of 3D Property Data and Assessment of the Impact of Rendering Attributes

Seipel, Stefan; Andrée, Martin; Larsson, Karolina; Paasch, Jesper M. et al.

Part of Journal of Geovisualization and Spatial Analysis, 2020

• DOI for Visualisation of 3D Property Data and Assessment of the Impact of Rendering Attributes
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