Samurai 3

Don't image the block.
Image what matters.

Try the live demo

No installation required.

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Samurai 3 Studio

From acquisition
to processing.

One pipeline. Studio aligns the tiles inside every cycle and the cycles to each other, matches contrast and brightness across the stack, renders it in 3D, and segments it with a classifier you train yourself — without leaving Samurai 3.

Live demo

Run it yourself.

Everything on this page — the tile plans, the time travel, autofocus, Studio — is in the software. Open it in your browser and drive it on real data.

Try the live demo

No installation required.

Specifications

Samurai 3.1.0 — the functions in the software.

acquisition

  • 01Any number of regions of interest — each with its own pixel size, dwell time, and tile grid
  • 02Per-tile on or off, including from any cycle through time travel
  • 03Optional tile overlap, with blend display in the viewport
  • 04Time travel — inspect and edit any past or planned cycle
  • 05Cycle engine: image enabled tiles, cut, repeat; pause and resume
  • 06Dwell ease-in, imaging addition (raise to focus), knife oscillator, thickness and cut speed

run control

  • 01Heuristic autofocus (variance, Sobel, Laplacian, outlier rejection) or the SEM’s built-in AF
  • 02Auto-stigmation
  • 03Debris detection — sweep the knife, re-image, continue or stop
  • 042D/3D overlays and masks; tile gating from a microCT or a drawn region
  • 05Scripting before and after each cut (wait, serial, TCP, external programs)
  • 06SQLite persistence — a finished tile is on disk; resume after a crash
  • 07Restore previous experiment; beam off and power save when the run completes
  • 08Detector-latch protection against blank frames after a vacuum event

studio

  • 01Stream acquired tiles into a Studio project (OME-Zarr)
  • 02Mosaic tile alignment within a cycle; stack alignment across cycles
  • 03Contrast and brightness matching across the whole stack
  • 04Trainable AI segmentation — paint, live preview, run through the volume (classical filters or MicroSAM)
  • 05Orthogonal XY / XZ / YZ views and 3D volume rendering, including OSPRay
  • 06Non-destructive lineage: contrast, denoise, curtaining, filters
  • 07Export: frames, video, mesh, Ilastik, TrakEM2 imagelist

modules

  • 01Kensho retractable BSED
  • 02Precision charge neutralisation (PCN) with live tip tracking
  • 03EDS elemental maps (Oxford AZtec)
  • 04Studio processing workbench

compatibility

  • 01Universal SEM Bridge — TESCAN, Zeiss SmartSEM, Thermo Fisher Quanta / Nova / Apreo, Hitachi, CIQTEK, JEOL
  • 02Generic SEM — folder watch and scripting when there is no API
  • 03Katana ultramicrotome over USB
  • 04Windows 10 or later (64-bit)
  • 05macOS on Apple Silicon (M-series)
Try the live demo

No installation required.