Work

Company work / Medical visualization

Orbycra

Medical visualization, interactive 3D systems, and patient-specific design work.

Company

Overview

Orbycra Bilişim Teknolojileri A.Ş. was founded by Giray Ötken, Başak Çakmak, and Ahmet Tolgay Akıncı through the TÜBİTAK 1812 BiGG support programme. The company is based at İTÜ ARI Teknokent and develops medical visualization and patient-specific design systems.

The work has followed two main project lines. GraftEngine focused on AI-assisted graft, mold, and guide design from medical imaging data. The current DICOM Viewer direction focuses on interactive, non-clinical volumetric visualization and reusable visual workspaces.

Company
Orbycra Bilişim Teknolojileri A.Ş.
Context
İTÜ ARI Teknokent and TÜBİTAK 1812 / BiGG project work
Current line
DICOM volumetric visualization and desktop interaction tools
Earlier line
GraftEngine patient-specific graft, mold, and guide workflows

Co-founders

Founding team

Giray Ötken

Project lead, software developer, and designer. My work covers the Unity applications, medical visualization and interaction systems, patient-specific design workflows, technical development, and project reporting.

Başak Çakmak

Software developer and user interface designer, with a background in architecture, computational design, XR development, and academic research. For GraftEngine, she worked on planning and designing the 3D model-completion AI system, including its AI architecture, training approach, and model training.

Ahmet Tolgay Akıncı

Neurosurgeon and medical device developer. He provides the clinical and surgical domain expertise for cranial grafts, spinal guide apparatuses, patient-specific devices, and the medical relevance of the work.

Current direction

Viewer

The Orbycra DICOM Viewer is being developed as a non-clinical volumetric visualization workspace. The desktop version loads DICOM series and visualizes scan intensity data as an interactive 3D volume inside a Unity application.

The current workspace is organized around visual layers, reusable states, inspection tools, and reversible operations rather than a single fixed rendering preset.

Earlier mobile and XR prototypes used a custom HLSL/URP ray-marching shader designed for interactive volumetric rendering on mobile-class GPUs. Empty-space skipping and dynamic sampling reduced unnecessary volume samples while retaining windowing, opacity, and transfer-function control.

Volume visualization

DICOM series loading, 3D texture preparation, ray-marched volume rendering, visible intensity ranges, window level/width, and transparent or solid results.

Layer workspace

Base and derived visual layers with visibility, solo, ordering, opacity, density, color, blend, and mask settings.

Inspection and editing

Axis views, slicer tools, filters, masks, voxel editing, density exclusion, and app-level undo/redo for reversible exploration.

Reusable state

Recipes for visual setups, sessions for application state, and operation history without treating raw patient series as part of the saved visual preset.

Current desktop viewer Orbycra DICOM Viewer desktop workspace showing an interactive volumetric rendering, three orthographic slice views, and the active Layers controls.
The desktop workspace with an interactive volume, orthographic slice views, and layer controls.
Earlier mobile prototype A handheld phone displaying an interactive three-dimensional volume rendering and scan controls.
An earlier mobile AR viewer prototype with volume and display controls.

TÜBİTAK 1812 / BiGG project

GraftEngine

GraftEngine was Orbycra's earlier project line for AI-assisted patient-specific grafts, graft molds, and related surgical-device design workflows. The supported project ran from 2024 to 2025 and combined medical image processing, machine-learning experiments, 3D modeling, and physical prototyping.

The cranial reconstruction work began with pro bono patient-specific design and manufacturing by Orbycra. For individual cases, Orbycra designed the cranial grafts and produced their molds at no cost; co-founder Assoc. Prof. Dr. Ahmet Tolgay Akıncı then used the resulting molds in surgery. GraftEngine grew from the effort to make parts of this case-by-case workflow more repeatable through medical-image processing, 3D design tools, and assisted geometry generation.

The project records include cranial graft and mold workflows, bone-defect datasets and completion experiments, cervical guide apparatus prototypes, and printed anatomy used for fit and design checks.

AI and data preparation

Bone datasets, synthetic defect generation, labeling, Mask R-CNN detection work, and PyTorch-based 3D completion experiments.

DICOM to 3D

Segmentation, reconstruction, density-based model generation, mesh repair, and conversion into editable patient-specific geometry.

Grafts and molds

Cranial defect completion, graft-form development, and negative-mold workflows for physical production.

Guide apparatuses

Cervical and spinal guide design using DICOM-derived anatomy, parametric fitting, printed vertebra models, and PLA/FDM prototypes.

AI training-data research A research composite showing region-of-interest selection across 3D samples, a selected surface region, and a training patch with its boundary band.
Region-of-interest selection and boundary-patch preparation across 3D training samples.
Guide design A blue patient-specific guide fitted to a reconstructed vertebra model with two screw paths.
A pedicle screw guide concept fitted to a reconstructed vertebra model.
VR planning prototype A VR planning prototype showing vertebrae, guide geometry, screw paths, and an interaction panel.
A VR prototype for inspecting vertebrae, guide geometry, and screw paths.

My contribution

Work

Software and rendering

Unity/C# application work, DICOM data handling, GPU volume rendering, shader development, layer architecture, state systems, and desktop interaction tools.

Interaction and product design

Viewer controls, inspection workflows, visual presets, desktop UI structure, reversible operations, and the translation of technical functions into usable tools.

Patient-specific prototyping

DICOM-to-model workflows, cranial graft molds, guide geometry, Maya and ZBrush work, mesh preparation, and 3D-printable prototypes.

Project development

Technical architecture, implementation, testing, reporting, grant and Teknokent project work, and coordination with clinical and computational-design collaborators.

Cotex / Kalbim Duracak