vizi — the ultimate app for scientific volumetric timeseries data
Smooth scrubbing through multi-GB/TB recordings. Voxel-perfect 3D rendering. Human curation and annotation, saved with every file. Generate presentation and paper ready output.
Smooth scrubbing through multi-GB/TB recordings. Voxel-perfect 3D rendering. Human curation and annotation, saved with every file. Generate presentation and paper ready output.
Scrub and play 10+ GB OME-TIFF, OME-Zarr, and SCAPE volumes at full resolution. A Rust I/O core and streaming load keep it smooth — no proxies, no precomputation.
Emissive (fluorescence-faithful) and MIP volume modes stay crisp at every zoom. Auto pyramid-level selection picks the right resolution for the camera distance.
Fly (WASD) or orbit through your data, with an orientation minimap and click-to-fly. Switch modes without losing your viewpoint.
Ctrl+click in 2D to fly the 3D camera to that voxel. The slice view and the volume view always agree on where you are.
Box and ellipse annotations persist per file. Crop to them — or to global X/Y/Z ranges — and rasterize any annotation into a voxel mask with a reported count.
Per-channel composite with colors, saved presets, and emissive balancing. A subtractive “stain” mode and a custom multi-stop colormap editor round it out.
Annotations, crops, contrast, colormaps, channel presets, and Z-anisotropy persist per file. Reopen and everything is exactly where you left it.
Export frames, sequences, and movies (MP4, GIF, PNG, TIFF) with optional timestamp, scale-bar, and colormap-legend burn-ins.
vizi is designed to facilitate the data exploration and the workflows scientists use.
Smooth scrubbing through long timeseries. Per-channel composite display for multi-fluorophore experiments. Built and tested on data from MicroManager-style pipelines.
FOCO Lab SCAPE compressed-zip files open directly — voxel intensities, channel layout, and physical pixel sizes come from the embedded metadata. T/Z/C dimensions match the file's anatomical axes so Z-scrubbing acts like depth.
Volumetric OME-TIFFs 10+ GB scrub smoothly at full resolution, and OME-Zarr / OME-NGFF stores open natively with their multiscale levels. Plain TIFFs without OME-XML open too — you set the T×Z split. CZI, ND2, LIF and ~150 other formats open through the optional Bio-Formats image server.
Named bounding boxes persist per session. Global X/Y/Z crops. Click-to-fly between 2D and 3D. Designed for the inspect-mark-export loop, not just look-and-close.
In the middle of every imaging pipeline — between raw acquisition and downstream analysis or publication.