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LeaRes

Documentation

The LeaRes guide — 48 chapters covering the platform, the medical imaging workflow, active learning, the CFD engineering workflow and the command-line client. The same content ships inside the LeaRes application as the in-app tutorial panel, which additionally covers chapters not published here.

Getting Started

  1. 01 Welcome to LeaRes Introduction to the LeaRes platform and its dual workflow system
  2. 02 Learning Path & Requirements Learning roadmap, requirements, and support resources
  3. 03 Interface Layout The main interface areas: ActionsTree, GView, Topside toolbar, and chatbot
  4. 04 Viewing & Presets Image presets, colormaps, and viewer layout controls
  5. 05 Measurement & Comparison On-image measurement tools and comparative view for before/after assessment
  6. 06 Modes & Settings Switching workflows, theme customization, notifications, and troubleshooting
  7. 07 AI Assistant — Basics Getting started with the AI chatbot and the first set of natural-language commands
  8. 08 AI Commands — Slices & Segmentation Slice and contrast controls, clipping, and AI-powered segmentation commands
  9. 09 AI Commands — Simulation & More CFD simulation commands, comparative view, settings, advanced analysis, and language support
  10. 10 AI Pipelines — Reusable Workflows Discover, inspect, run, and save reproducible multi-step workflows (Versioned Agentic Pipelines)

Medical Workflow

Segment → Reconstruct → Analyze

  1. 01 Medical Workflow Overview Introduction to the medical imaging workflow in LeaRes
  2. 02 Data Hierarchy, Intended Use, and Safety Data hierarchy, regulatory status and intended use, RUO modules, and data protection
  3. 03 Creating a Patient and Event How to create patient records and organize imaging events
  4. 04 Uploading and Viewing DICOM Data Upload DICOM data and view it in the orthogonal slice viewer
  5. 05 Importing Studies from the Hospital PACS Search the clinic's PACS and import CT/MR studies into a patient PACS
  6. 06 Verifying and Managing Data Verify data integrity, manage acquisitions, and troubleshoot uploads
  7. 07 Segmentation Methods Segment organs using AI-powered automatic segmentation, region growing, or thresholding Segment and Reconstruct
  8. 08 Working with Segments Manage the segment list, merge segments, and create a simulation project from the anatomies Segment and Reconstruct
  9. 09 3D Reconstruction: CleanUp and Smoothing Create a 3D surface mesh from segmented anatomy and smooth it Segment and Reconstruct
  10. 10 3D Reconstruction: Decimate and Finalize Decimate, remove small bits, select mask, and store the cleaned surface Segment and Reconstruct
  11. 11 Virtual Spirometry: Running and Results Run the analysis, review results, and interpret virtual spirometry output Respirology
  12. 12 Reinflation Analysis: Setup Open the lung surgery panel and select the resection Respirology

Active Learning

Annotate → Freeze → Train → Correct

  1. 01 Active Learning Overview What the annotation workspace is for, and the loop it closes Active Learning
  2. 02 Projects and Tasks Create a project, choose its task and network, define labels, attach cases and annotators Active Learning
  3. 03 Annotating with Masks The queue, the editor, the painting tools, saving and completing a case Active Learning
  4. 04 Annotating with Boxes Drawing and removing boxes in a detection project, and how they differ from masks Active Learning
  5. 05 Training and Proposals Freeze a dataset, split it, train on the site's own GPU, and send the model's proposals back to the annotators Active Learning

Engineering Workflow

Import → Configure → Simulate → Results

  1. 01 Engineering Workflow Overview Introduction to the CFD simulation workflow in LeaRes
  2. 02 Engineering Workspace Setup Simulation capabilities, UI navigation, and getting help in LeaRes
  3. 03 Importing Geometry Enter the engineering workspace, open a project, and import geometry
  4. 04 Importing from OnShape and Anatomy Import geometry from OnShape CAD or segmented anatomies, and review it
  5. 05 Implanting Parametric Devices Add catheters, stents, occluders, valves (TAVR/TAVI), cannulae, airway devices, and aerosol sources to a project from the built-in device library
  6. 06 Defining Zones Understand zones and paint inlet/outlet zones manually
  7. 07 Auto-Zoning and Verification Use AI-assisted Auto-Zoning, verify zones, and troubleshoot
  8. 08 Assigning Materials Set fluid and solid material properties for simulation
  9. 09 Boundary Conditions: Types Understand how boundaries work and the available boundary types
  10. 10 Boundary Conditions: Setup Configure inlets, outlets, walls, and understand transient flow
  11. 11 Creating and Launching a Simulation Create a simulation job, configure controls, and launch the run
  12. 12 Monitoring Progress and the Solver Monitor simulation progress, understand the solver, and troubleshoot
  13. 13 Loading and Coloring Results Load simulation results and color by scalar and vector fields
  14. 14 Surface LIC, Clipping, and Animation Use Surface LIC, clip the geometry, and animate through time frames

Command-Line Client

Install → Sign in → Load → Automate

  1. 01 Command-Line Client: Overview and Installation What the command-line client does, the ways to use it, and how to install it
  2. 02 Signing In Sign in from the terminal, find your databases, use another server, and sign in without prompts
  3. 03 Loading Patients Load one patient, or many at once from a folder or a list, check first, and read the results
  4. 04 Projects and Geometries Create engineering projects from STL or VTP files, many at once, and add further geometries to a project
  5. 05 Segmentation and STL Export Segment cardiac, lung or whole-body anatomy on the server and download the anatomies as STL files Segment and Reconstruct
  6. 06 Virtual Spirometry Run a virtual spirometry on a patient's CT and save the values, the curves and the PDF report on your computer Respirology
  7. 07 Scripting and Automation Machine-readable output, exit status, unattended runs, and troubleshooting