AI powered automated imaging and analysis workflows for EM systems - - PowerPoint PPT Presentation

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Jérôme Hummel, Guilhem Péretié, David Tourais, Rémi Blanc, Quentin Lavigne, Eric Goergen*

AI powered automated imaging and analysis workflows for EM systems

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Imaging & Analysis Introducing Avizo2D with AI

Blurring the line between

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Avizo2D Software – Overview

• Utilize a variety of image processing approaches in a single, easy to modify workflow
• The intuitive UI and modular approach enables ability to evaluate the accuracy of processing steps in real time
• Attach Avizo 2D directly to your system for on-the-fly analysis

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Integrated Solutions To ensure you leave our systems with answers Or, are armed with the best data to ask the right questions

Create a rich, integrated user experience that blends acquisition with advanced analysis

Imaging Analysis

Our Goal

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Avizo2D Software – The Platform

Input Image Characterized Output Interactive Workflow Player

• Access the full power of Avizo’s unmatched processing libraries in a completely redesigned, intuitive UI
• Build recipes on the fly and visualize the impact of each module choice or setting change in real time
• Quickly build processing routines for repeated tasks
• Batch process images for maximum efficiency
• Optimize Imaging conditions/segmentation while on the tool

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Introducing Avizo2D with AI

• Dedicated tools for image Labeling and Training of deep learning models
• Easy to use application suite to train custom-designed Python derived networks
• Any Trained Models can be inserted into analysis workflows (e.g. Keras-Tensor Flow)

Why Artificial Intelligence?

ü AI is well-suited to solving segmentation on traditionally difficult sample types ü Provides a strong framework for objective, repeatable analysis ü Adds access to cutting edge techniques via easy integration with established models

AI in Avizo2D

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Avizo2D Software – Deep Learning Models – Step 1: Labeler Cutting-edge technologies wrapped in a user friendly environment

• Simple tools for feature labeling
• Quickly populate data with target structures

300 nm

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Avizo2D Software – Deep Learning Models – Step 2: Trainer Easy to implement advanced AI workflows

• Choose base topology
• Label training set
• Input data and Ground Truth
• Set up training parameters

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Avizo2D Software – Deep Learning Models – Step 3: Analyzer using DL model

Model trained on a TEM stack of neural tissue Model applied on a Volume Scope stack

• f a mouse heart muscle

300 nm 2 µm

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AI Electron Imaging Denoiser

• Enhance image quality using AI-powered denoising tools
• Lower dwell time
• Quality data on sensitive samples

1 µm 1 µm

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• Go away from the tool with augmented insight
• Link direct to Avizo2D from the microscope
• Run image by image to tune results
• Batch process as images are obtained
• Connect directly to Maps for full automation

360 µm

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Avizo2D Software – The Online Recipe Library

• Access pre-built workflows
• Upload and share workflows
• Access pre-trained models
• Quickly get up to speed with image processing

approaches

• Benefit from workflows created by your peers

and application experts

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End-to-End Automation System Automation Visualize, Annotate, Share Correlative Microscopy Maps Software

ü Compatible with our full line of Electron Microscopes ü Make the most efficient use of your platform ü Integrated EDS Mapping on SEM and TEM

Automated Large Area imaging Templates for quick set up Automate single to thousands of frames Register and co-visualize imagery Import images from any source Import 3D stacks All imagery in one place Use multi-modal data as navigational aids Annotate and share results with colleagues

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Building Efficient Workflows

• Integrated workflows to decrease time to result
• Access advanced image processing pipelines while on the tool
• Tune and optimize imaging and processing workflows
• Automated, end to end experience

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Avizo2D Software – Connectivity with MAPS | Real-time Data Analysis

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Classify Au-Ni-Cl Nanoparticles from EDS map

Sample courtesy J. Bursik, Institute of Physics of Materials, Brno

• Analyzed using pre-built processing recipes
• Separated by composition
• Full size and shape statistical extraction

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Characterize porosity in separator polymer - Battery

• Repeatable analysis
• Simple traditional workflow
• Live tracking of morphological changes

300 nm

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Additive Manufacturing Powder – Statistical Characterization

• Easily automated workflow
• Full morphological characterization
• Compensation for focal depth

5 µm

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Fluorescence Microscopy: cell count in well plate

• Avizo2D can be used in optical imaging workflows
• Support for import and processing of common optical data outputs
• Import and batch process from a single folder or image stack

40 µm

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Summary

• Avizo2D is the digital eco-system for AI-powered, workflow-based imaging data analysis
• Low learning curve environment. No high-end image processing expertise required
• Unique inter-operability with Thermo Scientific EM acquisition software
• Solve analysis cases that are challenging for conventional techniques with AI
• Enables repeatable, standardized analysis approaches

AI Integration Tight System Integration Walk away with ANSWERS