EM-Software-Updates

Stay ahead with the latest electron microscopy software updates

We are always looking to improve your electron microscopy experience, whether through enhanced access to service experts, easy to use step-by-step guides, or hands-on training. We also know your electron microscopy lab requires maintenance to stay in top shape. A critical component of this ecosystem is thorough, practical software that enables you to get the best results possible from your instrumentation. That is why we offer a constant stream of improvements and updates to our software, ensuring you are able to achieve your goals as quickly and easily as possible.

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Release Notes

Server software for life sciences

Applicable instruments

Description of updates: 

  • Windows 10 Support

Availability:

Contact our on-site software service for update.

SPA acquisition software

Applicable instruments

Description of updates

  • Gatan BioQuantum 1967 with K3 camera is now also supported in EPU on systems with Titan 3.2.X or later, or Talos 2.2.X software or later.
  • Preparations > Acquision and Optics Presets: The most recent acquired preview for each Present remains availabe until a new Preview is acquired. On the preview image, the context menu provides navigation options.
  • Preparations > Acquision and Optics Presets: In the Data Acquisition Preset it is possible to select the C2 Aperture. The other Presets automatically use the same C2 Aperture, except for the Atlas Preset, which will always use the largest available C2 Aperture.
  • Atlas > Screening: In the Data Acquisition Preset it is possible to select the C2 Aperture. The other Presets automatically use the same C2 Aperture, except for the Atlas Preset, which will always use the largest available C2 Aperture.
  • Atlas > Acquire Atlas: The Load from Screening function imports the Atlas for the loaded specimen from the Screening task. This way, no new Atlas needs to be acquired. If the specimen has rotated or has otherwise shifted, then it is still possible to acquire a new Atlas.
  • Improvements and other changes:
    • EPU > Template Definition: The Defocus List is simplified, so it is much more user-friendly to create, edit and remove defocus values, and to copy defocus lists to existing Acquisition Areas.
    • EPU > Template Definition: The position of an Acquisition Area relative to the center of a Foil Hole is no longer specified in separate X and Y distances, but as the radial distance.
    • EPU > Setup Session: The selection of values and settings that is supported by the Session Preferences is extended with Hole Selection, Area Selection and Automated Acquisition Settings (incl. Phase Plate settings).
    • EPU > Hole Selection and EPU > Automated Acquisition: The accuracy of the Find Holes function is significantly improved.

To obtain update, download here.

Micro Electron Diffraction (MED / Micro-ED) acquisition software

Applicable instruments

Description of updates

  • Image Display:
    • Resolution Rings: this Image Display overlay gives a quick overview of the resolution of the diffraction pattern. This overlay can easily be centered with the diffraction pattern.
    • Diffraction Ruler: this Image Display overlay enables an easy method to measure the resolution of a particular bright spot.
    • Frame Slider: after the acquisition of a Tilt Series is completed, the Frame Slider enables inspection of the acquired images.
  • Atlas: An automatic check validates the integrity of a loaded Atlas.
  • Automated Acquisition:
    • Name: each Tilt Series must have a unique name. This name is included of the file-path for the acquired images.
    • Auto Eucentric: automatically sets the specimen to eucentric height, using the stage tilt method.
    • Histogram > Reset Auto Levels: reverts custom contract, brightness and gamma to the values that are calculated by the auto-level algorithm.
  • Improvements:
    • Automated Acquisition: The automatic contrast-brightness is improved.

Contact our on-site software service for update.

TOMO acquisition software

Applicable instruments

Description of updates

  • New user interface:
    • The TEM Tomography application now features the same look & feel and the other TEM / CryoEM applications: EPU and EPU-D.
    • The setup of the following functionalities has been redesigned for improved ease-of-use:
      • Batch Positions
      • Tilt Series
      • Image Filter settings
    • Tomography > Data Acquisition The Dose Symmetric Tilt Scheme schedules the tilt angle sequence so that the accumulated dose at low tilt angles is minimized. On dose-sensitive specimens, the Dose Symmetric Tilt Scheme provides the highest quality images for 3D reconstruction.
    • Preparation > Acquisition and Optics Presets The Gatan Quantum 1967 (with K3 camera) is now supported.
  • Improvements:
    • New acquisition engine The new Tomography acquisition engine provides faster and more robust automated acquisition.

Availability

Free of charge for service contracts

Contact our on-site software service for update.

Tomography post-alignment and reconstruction module

Applicable instruments

Description of updates

  • Rename "Reduce" tab to "Pre-processing Data" tab.
  • Inspect3D now integrates Motion Correction support on the "Pre-processing Data" tab.
  • Reconstruction preview follows the selected parameters.
  • Problem with odd size images in StackAlignment tab is fixed.
  • IMOD files can now be imported to Inspect 3D.
  • Support for Serial EM MRC-2014 variant.
  • EDS reconstructions: ability to apply alignment to “sparse” tilt series.
  • Tilt axis adjustment parameters are now saved in the shift file.
  • 30 day trial license support.
  • Some small fixes and improvements. 

Availability

Free of charge for service contracts

Contact our on-site software service for update.

Software (codecs) for viewing acquired images (via Windows explorer)

Applicable instruments

Description of updates

  • Improved Windows 10 stability

Availability

Free of charge for service contracts

To obtain update: Download here

Server software for life sciences applications

Applicable instruments

Description of updates: 2.15.1, 2.15.2

  • Titan 2.15.1: No embedding for BioQuantum-K3
  • Titan 2.15.2: Embedding for BioQuantum-K3
  • Embedding for Ceta-D camera
  • Advanced TEM scripting
  • Automated Performance Monitoring (APM): The Objective aperture precondition for the Center Objective Aperture alignment is changed from the 70 µm to the 100 µm aperture
  • Aberration Free Image Shift (AFIS), which enables EPU to achieve a higher throughput
  • Automatic Cryo-cycle for systems with an Autoloader

Availability

  • Titan 2.15.1: Does not support BioQuantum-K3
  • Titan 2.15.2: Only runs if BioQuantum-K3 is presentIncluded in service contracts
  • The AFIS calibration must be done by a Thermo Fisher Scientific engineer
  • Advanced TEM scripting is free-of-charge, but must be activated via our On-Site software update service

Contact our on-site software service for update.

Server software for life sciences applications

Applicable instruments

Description of updates

  • Advanced TEM scripting
  • Automated Performance Monitoring (APM): The Objective aperture precondition for the Center Objective Aperture alignment is changed from the 70 µm to the 100 µm aperture
  • Aberration Free Image Shift (AFIS), which enables EPU to achieve a higher throughput
  • Automatic Cryo-cycle for systems with an Autoloader

Availability

  • Talos 1.15.1: Does not support BioQuantum-K3 (will be available in Talos 1.15.2)
  • Included in service contracts
  • Advanced TEM scripting is free-of-charge, but must be activated via our On-Site software update service

Contact our on-site software service for update.

SPA acquisition software

Applicable instruments

Description of updates

  • Up to double throughput by using “Faster Acquisition” mode that utilizes Aberration Free Image Shift (AFIS requires at least Titan 2.15) in combination with hole clustering
  • Lacey carbon by default uses Faster Acquisition mode if available
  • Option for fast session setup from previously saved preferences that include Camera and Optics settings, session information and template definition
  • Support for the Gatan Bioquantum K3 detector (requires Titan 2.15.2):
    • Asynchronous data acquisition for maximum throughput
    • Support for LZW compressed TIFF output format for dose fractions
  • Usability improvements:
    • Objective aperture automatically retracted for Atlas acquisitions
    • Ability to load cartridge to stage from within the EPU Screening task
  • Various performance improvements and bug fixes

Availability

  • Included in service contracts
  • EPU 2.x is only available on Titan 2.12 and later, and Talos 1.12 and later
  • EPU 2.x does not support the Falcon 2 camera
  • EPU 1.x can be updated to EPU 2.x in case of service contract, it does not require license renewals.

To obtain update: Download here

Micro Electron Diffraction (MED / Micro-ED) acquisition software

Applicable instruments

Description of updates

  • This is the first release of the EPU-D software. The EPU-D software is a new product in the range of Thermo Scientific TEM Cryo-EM application software products

Availability

  • Included in Micro ED commercial package

Contact our on-site software service for update.

Server software for life sciences applications

Applicable instruments

Description of updates

  • Advanced TEM scripting (Extended scripting interface for academic third-party data acquisition software)
    • Falcon 3EC (counting mode) support
    • Interface to switch to next phase plate position
  • Automated Permance Monitoring (APM)
    • The objective aperture precondition for the center objective aperture alignment is changed from the 70 µm to the 100 µm aperture

Availability

  • This software release only supports Advanced TEM scripting on Krios G3i. Other platforms will be supported later (expected in June 2019 for all Krios platforms)
  • Titan 2.14.1 shall only support APM on Krios G3i systems
  • Included in service contracts

Contact our on-site software service for update.

Server software for life sciences applications

Applicable instruments

Description of updates

  • Automated Performance Monitoring (APM)
    • New function that assesses the microscope alignment status in a semi-automated fashion

Availability

  • Included in service contracts
  • Advanced TEM scripting is not yet supported in this release, but is expected to become available starting with the Talos 1.15 software update (July 2019) for Glacios/Talos platforms

Contact our on-site software service for update.

Single Particle Analysis (SPA) workflow guidance (iOS, Android)

Applicable instruments

Description of updates

  • Project name is no longer mandatory
  • Hide Workflow Assistant if empty
  • Now support two images per step
  • Added info on how to obtain a full license (login screen)
  • Improved workflow text formatting

Availability

To obtain update, download here: