Bruno M. Saraiva

Mapping bioimage-analysis software adoption in microscopy

The paper tracks the adoption of bioimage-analysis software across 1.7 million microscopy papers from 2010 to 2025, finding increased usage and concentration on general-purpose platforms like ImageJ/Fiji.

ReScale4DL: Balancing Pixel and Contextual Information for Enhanced Bioimage Segmentation

This paper evaluates how reducing image resolution affects deep learning performance in bioimage segmentation, finding that lower resolution can improve accuracy or cause minimal degradation.

mAIcrobe: an open-source framework for high-throughput bacterial image analysis

mAIcrobe provides an open-source framework for bacterial image analysis using deep learning models, enabling analysis of diverse bacterial species and microscopy modalities.

VLab4Mic: prediction of structural resolvability in super-resolution microscopy

VLab4Mic predicts structural resolvability in super-resolution microscopy by simulating imaging configurations and comparing results to experimental data.

Nucleoid-binding protein RicO anchors replication origins to the membrane to ensure correct chromosome segregation in Staphylococcus aureus

This study identifies RicO as a protein that anchors replication origins to the membrane in S. aureus, ensuring proper chromosome segregation.

Structural Repetition Detector: multi-scale quantitative mapping of molecular complexes through microscopy

The paper introduces SReD, an unsupervised framework for detecting repetitive biological structures in microscopy images, demonstrating its use on three datasets.

NanoPyx: super-fast bioimage analysis powered by adaptive machine learning

NanoPyx improves bioimage analysis speed using adaptive machine learning to optimize algorithm selection and execution.

Fast4DReg: Fast registration of 4D microscopy datasets

Fast4DReg corrects drift in 3D microscopy datasets using 2D cross-correlations, outperforming existing tools in speed and accuracy.