Related papers: MELAGE: A purely python based Neuroimaging softwar…

Access to diverse, well-annotated medical images with interactive learning tools is fundamental for training practitioners in medicine and related fields to improve their diagnostic skills and understanding of anatomical structures. While…

We present zea (pronounced ze-yah), a Python package for cognitive ultrasound imaging that offers a flexible, modular, and differentiable pipeline for ultrasound data processing. Additionally, it includes a collection of pre-defined models…

BrainLesion Suite is a versatile toolkit for building modular brain lesion image analysis pipelines in Python. Following Pythonic principles, BrainLesion Suite is designed to provide a 'brainless' development experience, minimizing…

In the past five years, the use of generative and foundational AI systems has greatly improved the decoding of brain activity. Visual perception, in particular, can now be decoded from functional Magnetic Resonance Imaging (fMRI) with…

MLE-Toolbox is a comprehensive open-source MATLAB toolbox for end-to-end analysis of magnetoencephalography (MEG) and electroencephalography (EEG) data. Inspired by widely used neuroimaging platforms such as Brainstorm and FieldTrip, it…

We present NeuralMag, a flexible and high-performance open-source Python library for micromagnetic simulations. NeuralMag leverages modern machine learning frameworks, such as PyTorch and JAX, to perform efficient tensor operations on…

We present Coord2Region, an open-source Python package that streamlines coordinate-based neuroimaging workflows by automatically mapping 3D brain coordinates (e.g., MNI or Talairach) to anatomical regions across multiple atlases. The…

Artificial intelligence (AI) is increasingly central to understanding how the brain processes information. However, the integration of neuroscience and modern AI is bottlenecked by a fragmented software ecosystem. Current tools are siloed…

Artificial intelligence (AI) has become a fundamental tool for assisting clinicians in analyzing ophthalmic images, such as optical coherence tomography (OCT). However, developing AI models often requires extensive annotation, and existing…

Generative AI has recently propelled the decoding of images from brain activity. How do these approaches scale with the amount and type of neural recordings? Here, we systematically compare image decoding from four types of non-invasive…

To be useful for downstream applications, vision decoding models that are trained to reconstruct seen images from human brain activity must be able to generalize to internally generated visual representations, i.e., mental images. In an…

Background: For newborn infants in critical care, continuous monitoring of brain function can help identify infants at-risk of brain injury. Quantitative features allow a consistent and reproducible approach to EEG analysis, but only when…

Deep Learning for neuroimaging data is a promising but challenging direction. The high dimensionality of 3D MRI scans makes this endeavor compute and data-intensive. Most conventional 3D neuroimaging methods use 3D-CNN-based architectures…

SelfEEG is an open-source Python library developed to assist researchers in conducting Self-Supervised Learning (SSL) experiments on electroencephalography (EEG) data. Its primary objective is to offer a user-friendly but highly…

ivadomed is an open-source Python package for designing, end-to-end training, and evaluating deep learning models applied to medical imaging data. The package includes APIs, command-line tools, documentation, and tutorials. ivadomed also…

Medical imaging is critical for diagnostics, but clinical adoption of advanced AI-driven imaging faces challenges due to patient variability, image artifacts, and limited model generalization. While deep learning has transformed image…

NeuroNet is a deep convolutional neural network mimicking multiple popular and state-of-the-art brain segmentation tools including FSL, SPM, and MALPEM. The network is trained on 5,000 T1-weighted brain MRI scans from the UK Biobank Imaging…

Spatial perception and reasoning are core components of human cognition, encompassing object recognition, spatial relational understanding, and dynamic reasoning. Despite progress in computer vision, existing benchmarks reveal significant…

In this study, we introduce MGA-Net, a novel mask-guided attention neural network, which extends the U-net model for precision neonatal brain imaging. MGA-Net is designed to extract the brain from other structures and reconstruct…

Creating tetrahedral meshes with anatomically accurate surfaces is critically important for a wide range of model-based neuroimaging modalities. However, computationally efficient brain meshing algorithms and software are greatly lacking.…