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An integrated software solution for cryo-electron tomography
Designed to bring a highly efficient cryo-electron tomography (Cryo-ET) workflow to both new and experienced users, the Thermo Scientific CryoTomo Software Suite provides a collection of integrated tools that streamline tilt series acquisition and 3D analysis. Available for Thermo Scientific cryo-transmission electron microscopes (cryo-TEMs), the suite is powered by Thermo Scientific Tomography 5 and Tomo Live Software with multigrid support, along with tools for advanced motion correction, navigation, and data management.
CryoTomo Software Suite features
Unlock the full potential of cryo-electron tomography
Explore the advanced tools and features of the CryoTomo Software Suite, which work together to accelerate scheduling, data acquisition, and 3D data analysis in cryo-electron tomography workflows.
- Cryo-ET data acquisition
- Scheduling of tomography data collection
- Cryo-ET data analysis
Acquire data more efficiently with user-friendly Tomography 5 Software, enabling 3D batch acquisition and advanced motion correction for beginners and advanced users alike.
Features include:
The addition of multigrid support maximizes the benefits of task parallelization, providing unsupervised data acquisition for multiple grids.
Features include:
Evaluate sample quality with novel tools for parameter-free, on-the-fly reconstruction and visualization of tomograms.
Features include:
Tomo Live Software
Tomo Live performs real-time motion correction, fiducial-free alignment, and 3D reconstruction during tilt-series acquisition. Instantly evaluate data quality and export pre-processed tomograms for further analysis in common cryo-EM tools.
Tomo Live Software runs on the microscope’s Data Management Platform server, and the user interface is integrated in the Thermo Scientific CryoFlow Software portal.
Discovery Viewer
Visualize and analyze large datasets with Discovery Viewer. Link tomograms to their grid positions and easily compare sample areas to explore cellular context with intuitive navigation.
CryoTomo Software Suite applications
In situ cryo-electron tomography with optimized motion correction
Chlamydomonas reinhardtii 80S ribosome density map, derived by subtomogram averaging of 130k particles extracted from 250 cellular tomograms. The full spatial and temporal resolution of the EER format (8k x 8k data) allowed an improved resolution to be achieved, as compared to 4k x 4k data with a pixel size of 1.96 Å.
Cryo-ET reveals organelle structures at the molecular level
In-situ tomogram from a Chlamydomonas cell with 3D visualization of the mitochondria membrane (red), ATP synthase (yellow), and ribosomes (cyan). Illustration by Jessica Heebner.
Tomo Live Software testimonials
"We use Tomo Live Software to reconstruct our tomograms on the fly and quickly assess whether to continue with the acquisition at this point in the sample. This is useful for our work on actin networks, which are not visible on lamellas. It also allows us to quickly and easily select the tomograms on which we are going to concentrate for subsequent data analysis."
Marion Jasnin
Helmholtz Pioneer Campus, Helmholtz Munich
“We run Tomo Live on all of our cryo ET sessions at DCI Geneva. Being able to automatically generate and inspect tomograms within minutes of acquiring tilt series data gives invaluable feedback on sample quality. It helps researchers rapidly confirm whether their target is present and if the sample is suitable for further data collection, as well as to evaluate collected datasets to identify the best tomograms for further analysis. We also find that Tomo Live is an especially helpful tool when training new facility users in tomography data collection.”
Andrew Howe
University of Geneva, Switzerland
Frequently asked questions
Q: What are the hardware and system requirements for installing CryoTomo Software Suite?
A: CryoTomo Software Suite runs on a high-performance workstation or server installed and configured by a Thermo Fisher Scientific field service engineer (FSE) or digital solutions engineer (DSE) during the suite setup. The server is equipped with the required GPU acceleration, RAM, and fast storage
Q: Is CryoTomo Software Suite compatible with existing Thermo Scientific electron microscopes?
A: Yes. CryoTomo Software Suite is designed to integrate seamlessly with Thermo Scientific™ Cryo-TEMs, including the Krios™ G5 Cryo-TEM and Glacios™ 2 Cryo-TEM. To check if your system is supported, please consult your account manager.
Q: How does CryoTomo Software Suite differ from Tomography 5 Software?
A: Tomography 5 Software is a component of the CryoTomo Software Suite responsible for tilt series acquisition. The suite’s Tomo Live component extends the capabilities of Tomography 5 Software with novel capabilities, including different output formats in certain hardware configurations, a queueing system for multiple grids, and initial real-time processing of data (alignment and reconstruction of tilt series).
Q: Is data generated by CryoTomo Software Suite compatible with third-party analysis tools?
A: The CryoTomo Software Suite supports multiple image output formats, including MRC, EER (specific to the Thermo Scientific Falcon 4/4i Detector), and TIF. For tilt-series alignment, it supports export of standard file formats (e.g., MRC, STAR) to enable downstream processing in third-party tools such as IMOD or RELION 4. Metadata and alignment files are structured to support seamless handoffs.
Q: Can CryoTomo Software Suite be used by researchers who are new to tomography?
A: Absolutely. CryoTomo Software Suite is designed with intuitive, user-friendly interfaces and includes automated setup wizards and guided workflows, making it accessible for both expert users and tomography beginners.
Q. What training resources are available for new users?
A: New users have access to guided onboarding, tutorials, and in-app tips within CryoTomo Software Suite. Thermo Fisher also offers remote and in-person training sessions, user guides, and workflow documentation to support a smooth learning curve.
Q: Can CryoTomo Software Suite be run remotely or accessed via a network?
A: Yes. CryoTomo Software Suite can be configured for remote access through institutional networks using secure protocols (e.g., VPN). This allows you to monitor acquisitions or process data from outside the microscope room or off-site.
Q: How many users can access CryoTomo Software Suite at once?
A: CryoTomo Software Suite supports multi-user environments and offers data review for up to 15 users. Volumetric visualization of reconstructed tomograms is limited to two simultaneous users.
Additional resources
Featured Webinar: Facilitating Access to the Cryo-ET Workflow with CryoTomo Software Suite
Explore how Tomography 5 and Tomo Live Software can significantly enhance your cryo-electron tomography workflows, from data acquisition to real-time analysis. This session is designed for professionals familiar with cryo-EM who want to enhance their data acquisition and processing workflows.
Additional webinars and tutorials
Product documentation
Stay up to date with cryo-ET software updates
For Research Use Only. Not for use in diagnostic procedures.