Open-Source Tools for Microscopy Data Workflows
Use experimental data across established tools for analysis, visualization, scripting, automation, and data management.
Open-source software for TEM, STEM, 4D-STEM, and cryo-EM workflows
Use the tools you trust.
Open scientific software makes methods more inspectable, adaptable, and reusable. It also gives researchers the freedom to build acquisition, analysis, visualization, simulation, automation, and data workflows around the needs of the experiment rather than a single commercial roadmap.
Colibri Platform™ is designed so laboratories can use the software and data environments selected for their research. Hummingbird Control™ controls and monitors supported Hummingbird hardware, while Hummingbird Connect™ supports defined and project-specific integration pathways with OEM, facility, and customer-selected environments. Together, these capabilities help Hummingbird systems participate in wider microscopy workflows without requiring researchers to replace the tools they already use.
Third-party tools are listed for reference. Inclusion does not imply affiliation, endorsement, official support, or native integration with Colibri Platform™. Third-party names and logos are the property of their respective owners.
Electron diffraction simulation tools used with pyXem workflows.
Multidimensional microscopy and spectroscopy analysis framework for Python.
Real-time and large-scale processing of 4D-STEM and scanning diffraction datasets.
Advanced electron microscopy image and diffraction simulation package.
Open-source microscope control, acquisition, visualization, and Python extensibility platform.
Crystal orientation analysis and visualization for diffraction datasets.
Analysis of diffraction datasets, virtual imaging, strain mapping, and phase reconstruction.
Bayesian single-particle analysis and cryo-EM reconstruction platform.
Integrated cryo-EM workflow environment connecting multiple packages.
Automated TEM acquisition, tomography, montaging, MicroED, and cryo-EM workflows.
Atomic-resolution STEM image quantification and atom column analysis.
Tomographic reconstruction, visualization, segmentation, and analysis.
Help develop more useful open workflows
Open microscopy advances through collaboration among software maintainers, research facilities, instrument manufacturers, and scientific users. Hummingbird Scientific welcomes suggestions for useful tools, interfaces, example datasets, reference workflows, and documentation improvements.
Hummingbird can contribute practical knowledge in areas including controller state, sample-environment metadata, stage coordinates, calibration, synchronization, and safe command boundaries.