Fsleyes Viewer
Fsleyes Viewer - Related Videos
07:21
Automated Interactive Video Playback for Studies of Animal Communication
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Cited by 23 •
2011
Video playback is a widely used technique in animal behavior. We created and evaluated a program that applies rules-based, interactive playback of 3-D computer animations in response to real-time, automated data on subject behavior.
12:08
From Voxels to Knowledge: A Practical Guide to the Segmentation of Complex Electron Microscopy 3D-Data
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Cited by 14 •
2014
The bottleneck for cellular 3D electron microscopy is feature extraction (segmentation) in highly complex 3D density maps. We have developed a set of criteria, which provides guidance regarding which segmentation approach (manual, semi-automated, or automated) is best suited for different data types, thus providing a starting point for effective segmentation.
10:41
Tracking and Quantifying Developmental Processes in C. elegans Using Open-source Tools
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Cited by 9 •
2015
Here it is shown how to track and quantify developmental processes in C. elegans. The methods presented are based on open-source tools that can be easily implemented. It is demonstrated how to reconstruct 3D cell-shape models, how to manually track subcellular structures, and how to analyze cortical contractile flow.
06:36
The Ames Room
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2023
Source: Laboratory of Jonathan Flombaum—Johns Hopkins University The most difficult challenge of visual perception is often described as one of recovering information about three-dimensional space from two-dimensional retinas. The retina is the light-sensitive tissue inside the human eye. Light is reflected from objects in the world, casting projections on the retina that stimulate these light sensitive cells. Objects that are side-by-side in the world will produce side-by-side stimulations on...
10:33
Expedited Radiation Biodosimetry by Automated Dicentric Chromosome Identification (ADCI) and Dose Estimation
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Cited by 33 •
2017
The cytogenetic dicentric chromosome (DC) assay quantifies exposure to ionizing radiation. The Automated Dicentric Chromosome Identifier and Dose Estimator software accurately and rapidly estimates biological dose from DCs in metaphase cells. It distinguishes monocentric chromosomes and other objects from DCs, and estimates biological radiation dose from the frequency of DCs.
FAQs
FSLeyes Viewer links displayed images through shared spatial coordinates, so anatomical scans and aligned overlays can be examined at corresponding brain locations. This layered arrangement lets researchers compare structural, functional, diffusion-derived, or statistical information without losing anatomical context. The result is a direct visual relationship between quantitative image results and the brain regions they represent.
These display controls determine how strongly image values appear and how clearly underlying anatomy remains visible. Adjusting colour maps can distinguish datasets, intensity ranges can emphasize relevant values, and transparency can reveal relationships between an overlay and its anatomical reference. Together, they help users inspect whether visible patterns are spatially meaningful rather than obscured by the display.
Viewing planes allow the same data to be examined from different anatomical directions, while spatial alignment keeps corresponding structures and overlays in register. This combination is important when assessing region-of-interest placement, checking whether findings follow expected anatomy, or inspecting potential discrepancies between datasets. It supports more reliable visual evaluation than examining an image without positional context.
The application can display NIfTI images alongside anatomical scans and aligned overlays, including structural and functional MRI, diffusion-derived maps, statistical results, atlases, and tractography. Bringing these sources into one coordinate-linked view helps researchers relate measured signals, anatomical regions, reference labels, and connectivity patterns. The appropriate combination depends on whether the goal is comparison, quality control, or interpretation.
A typical workflow begins by loading an image, establishing the anatomical scan as a reference, and adding aligned datasets as overlays. The user then selects suitable viewing planes and adjusts colour maps, intensity ranges, or transparency to clarify comparisons. Inspecting the resulting views supports region-of-interest assessment and quality control before findings are communicated or interpreted.
Researchers can use the visual display to check whether overlays occupy the expected anatomical locations and whether regions of interest correspond to the underlying brain structure. Comparing functional, diffusion-derived, or statistical results with anatomy can expose alignment or interpretation concerns. These checks connect image-based measurements with direct spatial evidence before researchers draw conclusions from the data.
Its layered views provide a visual bridge between quantitative analysis and recognizable brain anatomy. Researchers can show statistical results, atlas regions, diffusion-derived information, or tractography together with structural context, making spatial relationships easier to inspect and explain. This supports communication of imaging findings while preserving the coordinate-based relationship between each result and the brain.