Jónathan Heras
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View article: SAMJ: Fast Image Annotation on ImageJ/Fiji via Segment Anything Model
SAMJ: Fast Image Annotation on ImageJ/Fiji via Segment Anything Model Open
Mask annotation remains a significant bottleneck in AI-driven biomedical image analysis due to its labor-intensive nature. To address this challenge, we introduce SAMJ, a user-friendly ImageJ/Fiji plugin leveraging the Segment Anything Mod…
View article: Shifting trait coordination along a soil‐moisture‐nutrient gradient in tropical forests
Shifting trait coordination along a soil‐moisture‐nutrient gradient in tropical forests Open
Soil nutrients and water availability are strong drivers of tropical tree species distribution across scales. However, the physiological mechanisms underlying environmental filtering along these gradients remain incompletely understood. Pr…
View article: Conventional management has a greater negative impact on Phaseolus vulgaris L. rhizobia diversity and abundance than water scarcity
Conventional management has a greater negative impact on Phaseolus vulgaris L. rhizobia diversity and abundance than water scarcity Open
Introduction Drought is one of the biggest problems for crop production and also affects the survival and persistence of soil rhizobia, which limits the establishment of efficient symbiosis and endangers the productivity of legumes, the ma…
View article: Farm management has a greater impact on common bean rhizobia diversity and abundance than rainfed treatment
Farm management has a greater impact on common bean rhizobia diversity and abundance than rainfed treatment Open
Drought is one of the biggest problems for crop production and affects the survival and persistence of soil rhizobia. The reduced presence of rhizobia limits the establishment of symbiosis and endangers the productivity of legumes, which i…
View article: Disease-Associated Mutations in Tau Encode for Changes in Aggregate Structure Conformation
Disease-Associated Mutations in Tau Encode for Changes in Aggregate Structure Conformation Open
The accumulation of tau fibrils is associated with neurodegenerative diseases, which are collectively termed tauopathies. Cryo-EM studies have shown that the packed fibril core of tau adopts distinct structures in different tauopathies, su…
View article: AIROGS: Artificial Intelligence for Robust Glaucoma Screening Challenge
AIROGS: Artificial Intelligence for Robust Glaucoma Screening Challenge Open
The early detection of glaucoma is essential in preventing visual impairment. Artificial intelligence (AI) can be used to analyze color fundus photographs (CFPs) in a cost-effective manner, making glaucoma screening more accessible. While …
View article: Segmentation of the blastocyst structures using Image Processing and Machine Learning tools
Segmentation of the blastocyst structures using Image Processing and Machine Learning tools Open
Embryo selection is a fundamental and indispensable step to ensure the success of in vitro fertilization.There are two techniques to perform embryo selection: preimplantation genetic screening and embryo morphological grading.However, even…
View article: The Role of Mechanical Properties and Structure of Type I Collagen Hydrogels on Colorectal Cancer Cell Migration
The Role of Mechanical Properties and Structure of Type I Collagen Hydrogels on Colorectal Cancer Cell Migration Open
Mechanical interactions between cells and their microenvironment play an important role in determining cell fate, which is particularly relevant in metastasis, a process where cells invade tissue matrices with different mechanical properti…
View article: Clinical validation of an artificial intelligence algorithms for the detection of different central-involved retinal pathologies and glaucoma by using a non-mydriatic camera (Preprint)
Clinical validation of an artificial intelligence algorithms for the detection of different central-involved retinal pathologies and glaucoma by using a non-mydriatic camera (Preprint) Open
BACKGROUND The use of Artificial intelligence (AI) algorithms for detecting different ophthalmic diseases, especially diabetic retinopathy (DR), has become increasingly popular. OBJECTIVE To evaluate the screening performance of differe…
View article: Agrochemical inputs and management have a greater impact on common bean rhizobia diversity than drought
Agrochemical inputs and management have a greater impact on common bean rhizobia diversity than drought Open
Drought is one of the biggest problems for crop production and also affects the survival and persistence of soil rhizobia. The reduced presence of rhizobia limits the establishment of symbiosis and endangers the productivity of legumes, th…
View article: Disease associated mutations in tau encode for changes in aggregate structure conformation
Disease associated mutations in tau encode for changes in aggregate structure conformation Open
The accumulation of tau aggregates is associated with neurodegenerative diseases collectively known as tauopathies. Tau aggregates isolated from different tauopathies such as Alzheimer’s disease, corticobasal degeneration and progressive s…
View article: AIROGS: Artificial Intelligence for RObust Glaucoma Screening Challenge
AIROGS: Artificial Intelligence for RObust Glaucoma Screening Challenge Open
The early detection of glaucoma is essential in preventing visual impairment. Artificial intelligence (AI) can be used to analyze color fundus photographs (CFPs) in a cost-effective manner, making glaucoma screening more accessible. While …
View article: Semi-Supervised Machine Learning: a Homological Approach
Semi-Supervised Machine Learning: a Homological Approach Open
In this paper we describe the mathematical foundations of a new approach to semi-supervised Machine Learning. Using techniques of Symbolic Computation and Computer Algebra, we apply the concept of persistent homology to obtain a new semi-s…
View article: Semi-Supervised Semantic Segmentation for Identification of Irrelevant Objects in a Waste Recycling Plant
Semi-Supervised Semantic Segmentation for Identification of Irrelevant Objects in a Waste Recycling Plant Open
In waste recycling plants, measuring the waste volume and weight at the beginning of the treatment process is key for a better management of resources. This task can be conducted by using orthophoto images, but it is necessary to remove fr…
View article: Binary and multi-class automated detection of age-related macular degeneration using convolutional- and transformer-based architectures
Binary and multi-class automated detection of age-related macular degeneration using convolutional- and transformer-based architectures Open
This work shows that working with convolutional based architectures is more suitable than using transformer based models for classifying and grading AMD from retinal fundus images. Furthermore, convolutional models can be improved by means…
View article: Automatic Diagnosis of Myocarditis Disease in Cardiac MRI Modality using Deep Transformers and Explainable Artificial Intelligence
Automatic Diagnosis of Myocarditis Disease in Cardiac MRI Modality using Deep Transformers and Explainable Artificial Intelligence Open
Myocarditis is a significant cardiovascular disease (CVD) that poses a threat to the health of many individuals by causing damage to the myocardium. The occurrence of microbes and viruses, including the likes of HIV, plays a crucial role i…
View article: Application of multi-regression machine learning algorithms to solve ocean water mass mixing in the Atlantic Ocean
Application of multi-regression machine learning algorithms to solve ocean water mass mixing in the Atlantic Ocean Open
The distribution of any non-conservative variable in the deep open ocean results from the circulation and mixing of water masses (WMs) of contrasting origin and from the initial preformed composition, modified during ongoing simultaneous b…
View article: Towards a framework for the democratisation of deep semantic segmentation models
Towards a framework for the democratisation of deep semantic segmentation models Open
Semantic segmentation models based on deep learning techniques have been successfully applied in several contexts. However, non-expert users might find challenging the use of those techniques due to several reasons, including the necessity…
View article: A Topological Approach for Semi-Supervised Learning
A Topological Approach for Semi-Supervised Learning Open
Nowadays, Machine Learning and Deep Learning methods have become the state-of-the-art approach to solve data classification tasks. In order to use those methods, it is necessary to acquire and label a considerable amount of data; however, …
View article: Semi-Supervised Learning for Image Classification using Compact Networks in the BioMedical Context
Semi-Supervised Learning for Image Classification using Compact Networks in the BioMedical Context Open
The development of mobile and on the edge applications that embed deep convolutional neural models has the potential to revolutionise biomedicine. However, most deep learning models require computational resources that are not available in…
View article: Neural Style Transfer and Unpaired Image-to-Image Translation to deal with the Domain Shift Problem on Spheroid Segmentation
Neural Style Transfer and Unpaired Image-to-Image Translation to deal with the Domain Shift Problem on Spheroid Segmentation Open
Background and objectives. Domain shift is a generalisation problem of machine learning models that occurs when the data distribution of the training set is different to the data distribution encountered by the model when it is deployed. T…
View article: Text Classification Models for Form Entity Linking
Text Classification Models for Form Entity Linking Open
Forms are a widespread type of template-based document used in a great variety of fields including, among others, administration, medicine, finance, or insurance. The automatic extraction of the information included in these documents is g…
View article: Automatic Diagnosis of Schizophrenia in EEG Signals Using CNN-LSTM Models
Automatic Diagnosis of Schizophrenia in EEG Signals Using CNN-LSTM Models Open
Schizophrenia (SZ) is a mental disorder whereby due to the secretion of specific chemicals in the brain, the function of some brain regions is out of balance, leading to the lack of coordination between thoughts, actions, and emotions. Thi…