 The Stereologer/Fiji System
The Smart Choice For Computerized Stereology and Image Analysis
Thank you for your interest in the Stereology Resource Center, the most trusted name for stereology-related products and services.
Price Check: We Like Saving You Money
Whether in academic institutions, government agencies or private industry, cost is a factor in many purchasing decisions. Our stereology software systems will fit every budget, from a single users to multiple workstations in Microscopy and Imaging Cores. Starting at about $30K (USD) we will install a complete Stereologer/Fiji system on your existing microscope. If you have received quote from other companies, then you are probably paying too much. Depending on your imaging and microscopy, we can package your Stereologer/Fiji system with the microscope of your choice. We will work with your microscope representative to provide a single quote with your selected features. This complete "turn-key" solution will meet your short- and long-term requirements for computerized stereology and image analysis.
Contact the SRC online to discuss the options for bringing a Stereologer/ Fiji system into your lab.
Comprehensive Systems For Unbiased Stereology And Image Analysis All Stereologer/Fiji systems include: - The most user-friendly workflow in the industry.
- Full compatibility with all types of microscopes.
- Three axis (xyz) motorized stage and high-resolution cameras.
- Z-axis length gauge indicator for closed-loop feedback.
- New Apple or PC computer of your choice with monitor, keyboard, and mouse.
- Automatic calculation of results with export option to Excel and statistical programs.
- Automatic optimization of sampling parameters for maximum efficiency.
- Complete installation on your existing or new microscope.
- Calibration slide (stage micrometer).
- Technical and stereology support including study design and tissue processing reviews from professional bioscientists and stereologists (not salesman or computer programmers).
- The clearly written and well-illustrated Stereologer Handbook.
- Copy of "Unbiased Stereology: A Concise Guide" by The Johns Hopkins University Press).
- Three years of complete system maintenance, stereology software upgrades, and warranty, and phone/email/remote support.
Most Popular Features The list below provides the Stereologer/Fiji modules and features most commonly used for computerized stereology and image analysis.
For Stereologer users: - The Optical Fractionator and Optical Disector for Total Object (cell) Number and Numerical (cell) Density.
- Cavalieri and point counting method for Total Region Volume.
- The Rotator and Nucleator for Mean Cell Volume.
- Space Balls (isotropic sphere probes) for Total Length and Length Density.
- Volume Fraction and Total Object Load.
- Virtual cycloids for Surface Area and Surface Density.
- Rare Event Protocol for unbiased counting of rare events.
- Spatial Distribution.
For Fiji Users: - Image stitching into zoomable two-dimensional montages, e.g., for poster presentations.
- Segmentation and thresholding.
- Neurite Tracer.
- 2-D to 3-D Stack registration.
- Densitometry.
Contact the SRC online to discuss the options for bringing a Stereologer/ Fiji system into your lab.
The Stereologer Handbook
 Like all our products and services, The Stereologer Handbook brings user-friendly information to your fingertips.
Chapters include complete reviews of the essential theory and practice of computerized stereology, detailed study designs for all the major stereology methods, easy-to-follow procedures and techniques to optimize data collection for maximal efficiency.
Well written and illustrated with examples from real studies, the Stereologer Handbook is a powerful resource for your operational and study design questions.
State-of-the-Art Image Analysis with Fiji
 For a wide range of powerful image analysis features, every Stereologer system is equipped with Fiji (Fiji Is Just ImageJ), the
NIH's powerful Java-based image analysis and image processing program.
A license-free and fully supported program from the National Institutes of Health (NIH), Fiji enjoys the largest user-base of any image analysis system in the world. With the source code for Fiji in the public domain and full support by the NIH, you save thousands of dollars in purchase and maintenance costs required for the same functionality sold by commercial vendors.
Like the Stereologer system, Fiji is fully compatible with both Macintosh (Apple) and PC (Windows) platforms.
Contact the SRC online to discuss the options for bringing a Stereologer/ Fiji system into your lab.
Optimal System Configuration for Stereology and Image Analysis Core Laboratories
For insight into this question, Peter R. Mouton, Ph.D., Director of the SRC's Stereology Core Facility, recommends the Stereologer system for your quantitative studies of biological structure and for capturing images for NIH's Fiji image analysis program.
"Our Stereologer system is installed on a brightfield microscope with epifluorescence and low-to-high resolution optics interfaced with high resolution digital imaging and a joy-stick controlled motorized X-Y-Z stage. The stereology software and XYZ motorized stage on the Stereologer system allows us to capture images for image analysis. We actually run two computerized stereology workstations, one with Stereologer for pilot studies and image analysis / processing, and a second system with just the Stereologer for stereology projects if they require more than two weeks of data collection."
"If you find your projects require more advanced image analysis features than available in Fiji, I recommend adding the modules you need from Imaris (Bitplane). Especially for an Imaging and Microscopy Core, the three-tier Stereologer/Fiji/Imaris approach builds functionality as your needs develop while providing the professional support, if and when you need it, without paying for costly maintenance until you need it."
"The full configuration of Stereologer/Fiji/Imaris equips your laboratory to analyze and process images from a wide range of biological tissue, from unbiased stereology studies to basic and advanced image analysis applications, montage creation, 2-D to 3-D renderings and mapping to neuron/filament tracing and analysis, 3-D serial reconstruction and analysis of stored images from confocal and electron microscopes. Finally, your facility needs strong support from bioscientists who use the system, not salesman trained to sell additional stereology software at every turn."
"All three of these programs (Stereologer/Fiji Imaris) are user-friendly, cost-effective and work together on the same hardware, including both Apple and Windows computers. I believe in giving users the chance to choose their computer platform based on their experience and preferences. In our Core Facilities, we train students, technicians and faculty to proficiency with these programs. Afterward, PIs have the option to run these programs in their own labs on the platform of their choice by purchasing single licenses from the software vendors at reduced prices. Another advantage comes when trained users transfer to another institution where they may continue with the same platform or switch to the other."
For the past two decades, Dr. Peter R. Mouton has been the chief scientific consultant in development of the Stereologer system, as well as a principal investigator on NIH grants and co-owner of the system. He has two decades of experience as director of Microscopy & Imaging Core Facilities at the Johns Hopkins University School of Medicine (Baltimore, MD), the National Institute on Aging (NIH) and the University of South Florida School of Medicine (Tampa, FL). Dr. Mouton is the author of the most highly cited publications, books and book chapters on unbiased stereology. For the past two decades he has organized and taught stereology courses for scientists who use not only the Stereologer system, but all computerized systems on the commercial market.
 Contact us on-line or call 410-739-1667 to request a quote or to speak with a stereology expert.
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