Search Results for author: Alvaro Gomariz

Found 7 papers, 0 papers with code

Integrating multiscale topology in digital pathology with pyramidal graph convolutional networks

no code implementations22 Mar 2024 Victor Ibañez, Przemyslaw Szostak, Quincy Wong, Konstanty Korski, Samaneh Abbasi-Sureshjani, Alvaro Gomariz

The architecture's unique configuration allows for the concurrent modeling of structural patterns at lower magnifications and detailed cellular features at higher ones, while also quantifying the contribution of each magnification level to the prediction.

Multiple Instance Learning whole slide images

Aggregation Model Hyperparameters Matter in Digital Pathology

no code implementations29 Nov 2023 Gustav Bredell, Marcel Fischer, Przemyslaw Szostak, Samaneh Abbasi-Sureshjani, Alvaro Gomariz

Digital pathology has significantly advanced disease detection and pathologist efficiency through the analysis of gigapixel whole-slide images (WSI).

Representation Learning whole slide images

Unsupervised Domain Adaptation with Contrastive Learning for OCT Segmentation

no code implementations7 Mar 2022 Alvaro Gomariz, Huanxiang Lu, Yun Yvonna Li, Thomas Albrecht, Andreas Maunz, Fethallah Benmansour, Alessandra M. Valcarcel, Jennifer Luu, Daniela Ferrara, Orcun Goksel

We evaluate our methods for domain adaptation from a (labeled) source domain to an (unlabeled) target domain, each containing images acquired with different acquisition devices.

Contrastive Learning Unsupervised Domain Adaptation

Probabilistic Spatial Analysis in Quantitative Microscopy with Uncertainty-Aware Cell Detection using Deep Bayesian Regression of Density Maps

no code implementations23 Feb 2021 Alvaro Gomariz, Tiziano Portenier, César Nombela-Arrieta, Orcun Goksel

We herein propose a deep learning-based cell detection framework that can operate on large microscopy images and outputs desired probabilistic predictions by (i) integrating Bayesian techniques for the regression of uncertainty-aware density maps, where peak detection can be applied to generate cell proposals, and (ii) learning a mapping from the numerous proposals to a probabilistic space that is calibrated, i. e. accurately represents the chances of a successful prediction.

Cell Detection Image Classification +1

Utilizing Uncertainty Estimation in Deep Learning Segmentation of Fluorescence Microscopy Images with Missing Markers

no code implementations27 Jan 2021 Alvaro Gomariz, Raphael Egli, Tiziano Portenier, César Nombela-Arrieta, Orcun Goksel

However, for combinations that do not exist in a labeled training dataset, one cannot have any estimation of potential segmentation quality if that combination is encountered during inference.

Image Segmentation Segmentation +1

Siamese Networks with Location Prior for Landmark Tracking in Liver Ultrasound Sequences

no code implementations23 Jan 2019 Alvaro Gomariz, Weiye Li, Ece Ozkan, Christine Tanner, Orcun Goksel

Image-guided radiation therapy can benefit from accurate motion tracking by ultrasound imaging, in order to minimize treatment margins and radiate moving anatomical targets, e. g., due to breathing.

Landmark Tracking

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