Imaging Software NIS
Imaging Software NIS-Elements
Nikon offers total software solution covering image capture, archiving, and analysis
NIS-Elements is an integrated software imaging platform developed by
Nikon to achieve comprehensive microscope control, image capture,
documentation, data management and analysis.
NIS-Elements handles multidimensional imaging tasks flawlessly with
support for capture, display, peripheral device control, and data
management & analysis of images of up to six dimensions. The system
also contributes to experiment efficiency with a database building
feature developed to handle archiving, searching, and analysis of large
numbers of multidimensional image files.
Unified control of the entire imaging system offers significant benefits
to users for cutting-edge research, such as live cell imaging.
Why NIS-Elements?
As a leading microscope manufacturer, Nikon realizes the
importance of providing its customers with system-based
solutions to free the user to focus on the work and not the
complexities of the microscope. NIS-Elements was designed
with this in mind. Never before has a software package
achieved such comprehensive control of microscope image
capturing and document data management.
Microscopes
Total Imaging Solution
In designing and bringing to market the most
technologically advanced optical systems, Nikon has
worked very hard to provide a “total imaging
solution” that meets the ever-evolving demands of
the microscope user.
Digital Cameras
Software
•Highest Quality Optical Performance
The world-renowned Nikon CFI60 infinity optical system effectively set a new standard for optical quality by providing longer working
distances, higher numerical apertures, and the widest magnification range and documentation field sizes.
As a leader in digital imaging technology, Nikon recognized the importance of adapting its optics to optimize the digital image. Nikon’s new
objectives and accessories are specifically engineered for digital imaging, with exclusive features, such as the Hi S/N System, which eliminates
stray light and provides unprecedented signal-to-noise ratios.
Because what you see depends greatly on the quality of your microscope, we strive to power our microscope systems with optical technologies
that are nothing but state-of-the-art.
•Diverse Line of Powerful Digital Cameras
The NIS-Elements suite is available in three
packages scaled to address specific application
requirements.
Image capture has become a high priority in microscopy and the demand for products that deliver high quality and versatile functionality has
grown considerably in recent years. In accordance, Nikon offers a full line of digital cameras, addressing the varied needs of microscopists in
multiple disciplines. Each Nikon digital camera is designed to work seamlessly with Nikon microscopes, peripherals, and software. With Nikon
Digital Sight (DS) series cameras, even novice users can take beautiful and accurate microscopic images. For the advanced researcher, hiresolution image capture and versatile camera control is fast and simple. Together with Nikon’s new software solutions, image processing and
analysis have reached new levels of ease-of-use and sophistication.
•Intelligent Software Solutions
The most sophisticated of the three packages, NIS-Elements
AR is optimized for advanced research applications. It
features fully automated acquisition and device control
through full 6D (X, Y, Z, Lambda (Wavelength), Time,
Multipoint) image acquisition and analysis.
NIS-Elements BR is suited for standard research applications,
such as analysis and photodocumentation of fluorescent
imaging. It features acquisition and device control through
4D (up to four dimensions can be selected from X, Y, Z,
Lambda (Wavelength), Time, Multipoint) acquisition.
NIS-Elements D supports color documentation requirements
in bioresearch, clinical and industrial applications, with basic
measuring and reporting capabilities.
2
Designed to serve the needs of advanced bioresearch, clinical, industrial and documentation professionals, NIS-Elements provides a totally
integrated solution for users of Nikon and other manufacturers’ accessories by delivering automated intelligence to microscopes, cameras, and
peripheral components. The software optimizes the imaging process and workflow and provides the critical element of information
management for system based microscopy.
Multi-layer Document Structure
NIS-Elements uses a sophisticated image documentation structure making it possible
to achieve non-destructive archiving of image data including annotation (arrows,
lines, text notes), measurement data, binary data for storing results of threshold or
classification processes, and meta-data information for recording acquisition and
device conditions at the time of image acquisition.
Annotations
Binary
Color
3
Realizing a smooth flow from image capture to process and me asurement
Image Acquisition
Large Image Stitching
Optical Configuration
Microscope parameters, such as fluorescence filter and shutter
combinations, can be saved and displayed as icons in the tool bar,
allowing one-click setup. Setting up a CCD camera, applying
shading compensation to each objective lens, and saving
calibration data is also possible.
This tool allows composition of large-area images with high magnification. Ultra
high-resolution images can be stitched automatically from multiple frames
through use of a motorized stage. NIS-Elements uses special algorithms to
assure maximal accuracy during stitching. The user can also capture and stitch
frames by moving the microscope stage manually.
View
1
nD Viewer (Multidimensional image display)
2
3
Easy-to-use parameters for multidimensional image operation are
located on the frame of the screen.
Image acquisition screen
1
T: Time Lapse
Diverse Dimensional Acquisition
2
Multichannel Image
Z-series
Images using defined filters can be
captured to view in various light
wavelengths. Simply define the color
of channels and the optical
configuration that is to be used for
capturing the set of images.
Images at different Z-axis planes can be captured with a motorized Z-Focus
control. NIS-Elements supports two methods of Z-axis capture: Absolute
Positioning and Relative Positioning.
XY: Multipoint
3
Z: Z-series (slices)
4
Wavelength: Multichannel
4
View Synchronizer
Confocal Image Import
The View Synchronizer allows
for the comparison of two or
more multidimensional image
documents. It automatically
synchronizes the views of all
documents added.
Time Lapse
Multipoint Experiments
The sophisticated but user-friendly time-lapse process enables the staggering
of image capture simply by defining interval, duration, and frequency of
capture.
With the motorized stage installed, it is possible to automatically capture images at
different XY and Z locations.
Images acquired with Nikon
confocal microscopes C1si
and C1plus can be
imported.
Process
Various image views can be selected to study captured data.
2
1
3
0 sec.
4
15 sec.
30 sec.
Multidimensional image
Orthogonal image
Volume rendering
5
Time Measurement
Measurement
Time Measurement records the average pixel intensities within
defined probes during a time interval and can be performed on
live or captured data sets. Time measurement also allows for realtime ratios between two channels.
Interactive Measurement
Profile
NIS-Elements offers all necessary measurement parameters, such as
taxonomy, counts, length, semiaxes, area and angle profile.
Measurements can be made by drawing the objects directly on the
image. All output results can be exported to any spreadsheet editor.
Five possible interactive line profile measurements provide consecutive
intensity of a sourced image along an arbitrary path (free line, twopoint line, horizontal line, vertical line and polyline).
Classifier
Classifier allows segmentation of the image pixels according to
different user-defined classes, and is based on different pixel features
such as intensity values, RGB values, HSI values, or RGB values
ignoring intensity. The classifier enables data to be saved in separate
files.
Automatic Measurement
NIS-Elements enables automatic
measurement by creating a binary
image. It can automatically measure
length, area, density and colorimetry
parameters sets, etc. About 90
different object and field features can
be measured automatically.
RAM Capturing
RAM Capturing enables the recording of very quick sequences to
capture the most rapid biological events by streaming data
directly to the computer’s video memory.
Report Generator
Image Processing
Report Generator enables the user to create customized reports
containing images, database descriptions, measured data, user
texts, and graphics. PDF files can be created directly from NISElements.
Color Adjustment
Image Arithmetic
contrast/background subtraction/component mix
A+B/A-B/Max/Min
NIS-Elements is suitable for hue adjustment, independently for each
color, and converts the color image to an RGB or HSI component.
NIS-Elements performs arithmetic operations on color images.
Filters
Merge Channels
Morphology
NIS-Elements offers a rich spectrum of mathematical
morphology filters for object classification. Morphology
filters can be used to segment binary and grayscale
images for measurement analysis purposes. Various
morphometric parameters mean image processing is
easier than ever.
•Basic morphology (erosion, dilatation, open, close)
•Homotopic transformations (clean, fill holes, contour, smooth)
•Skeleton functions (medial axis, skeletonize, pruning)
•Morphologic separation and others
smoothing/sharpness/edge detection
NIS-Elements contains intelligent masking filters for image smoothing,
sharpness, edge detection, etc. These filters not only filter noise, but
also are effective in retaining the image’s sharpness and detail.
Original
Contour
Threshold
Zones of Influence + Source
Before using the edge detection filter
6
Multiple single channel images (captured with different optical filters
or under different camera settings) can be merged together simply by
dragging from one image to another. In addition, the combined
images can be stored to
a file while maintaining
their original bit depths
or, optionally, can be
converted into an RGB
image.
After using the edge detection filter
7
Various convenient plug-ins for advanced imaging and analysis capabilities
2D Real-time Deconvolution
Multidimensional Acquisition (4D/6D)
NIS-Elements can combine X, Y, Z, Lambda (wavelength), Time and
Multi-Stage points within one integrated platform for
multidimensional imaging. All combinations of multidimensional
images can be combined together in one ND2 file sequence using
an efficient workflow and intuitive GUI. The user can easily choose
the proper parameters for each dimension and the software and
hardware will work seamlessly together to provide high quality
results. Results may be exported into other supported image and
video file formats.
The real-time 2D deconvolution module (from AutoQuant ®) allows
the user to observe live specimens with less out-of-focus blur. It
allows faint biological processes to be observed that may
otherwise be missed and increases observed signal-to-noise ratio.
T, XY, Z, λ simultaneous acquisition
EDF: Extended Depth of Focus
Extended Depth of Focus (EDF) is an additional software plug-in for
NIS-Elements. Thanks to the EDF function, images that have been
captured in a different Z-axis can be combined to create an all-infocus image. Also, it is possible to create stereovision image & 3D
surface image for a virtual 3D image.
ND documentation exportation
Convert sequential images to ND2 file
Multidimensional image cropping
Focused image created from a sequence of Z-stack images
AVI generation
Stereovision image
Virtual 3D image
Database
3D Deconvolution
NIS-Elements has a powerful image database module that
supports image and meta data. Various databases & tables
can easily be created and images can be saved to the
database via one simple mouse-click. Filtering, sorting and
multiple grouping are also available according to the
database field given for each image.
The haze and blur of the image that can occur when capturing a thick
specimen or a fluorescence image can be eliminated from the
captured 3D image. Images acquired with Nikon confocal microscopes
C1si and C1plus can be imported to NIS-Elements.
Hardware plug-ins for peripherals are also available.
Before deconvolution
8
After deconvolution
NIS-D Stage
NIS-D Shutter
NIS-D Splitter DV
For motorized XY stage control
For control of motorized filter wheel with shutter
For control of camera emission splitter
NIS-D XCITE
NIS-D Z-drive
For fiber illumination control
For external Z-drive control
9
System Configuration Examples
3D (XYt), 4D (XYZt) Time-Lapse Imaging System
NIS-Elements
software
Cooled CCD
camera
By controlling the shutter attached to a
microscope, long-term time-lapse
observation is possible. As well as
conventional time-lapse acquisition, HighSpeed RAM capturing is possible. By
controlling the Z focus of a microscope, 4D
time-lapse acquisition is also possible,
depending on the thickness (Z-axis
direction) of the specimen.
5D (XYZλt) Imaging System
Shutter
Motorized
barrier
filter wheel
NIS-Elements
software
Cooled CCD camera
Mercury/
Xenon lamphouse
COARSE FOCUS
ESCAPE
Motorized inverted
microscope TE2000-E
Data analysis
equipment
Motorized
excitation
filter wheel
COARSE FOCUS
ESCAPE
Motorized inverted microscope
TE2000-E
4D (XYZλ) Multicolor Imaging System
NIS-Elements
software
Motorized
barrier
filter wheel
By controlling the fluorescence filter wheel,
excitation and absorption lights can be
changed to observe a specimen.
Mercury/
Xenon lamphouse
Data analysis
equipment
By controlling the motorized microscope, it is possible to
change the focus plane (Z focus) and the excitation and
absorption lights. The experiment program can be easily
set up by selecting the necessary settings without using
the special macro.
Moreover, handling of the acquired image data is made
easy. Various processes also facilitate analysis and
visualization after image acquisition.
Cooled CCD
camera
6D (XYZλt Multipoint) Imaging System
COARSE FOCUS
ESCAPE
Motorized inverted
microscope TE2000-E
epi-fluorescence set
Mercury/
Motorized Xenon lamphouse
excitation
filter wheel
Shutter
Data analysis
equipment
NIS-Elements
software
Motorized
XY stage
Industrial System
NIS-Elements
software
By controlling the Z focus of a microscope,
images of the same viewfield with different
focus planes are automatically captured
with the EDF tool to create an all-in-focus
image in the specimen’s depth direction.
Cooled
CCD camera
COARSE FOCUS
ESCAPE
Digital camera
XY joystick
XY stage controller
IN
100
0
Industrial microscope
LV150A
Data analysis
equipment
Z-focus module
10
Data analysis
equipment
OUT
0
100
Motorized inverted microscope
TE2000-E epi-fluorescence set
Controller
By controlling the motorized microscope and stage,
simultaneous multipoint time lapse and acquisition of
Z-axis information of each of these points is possible.
For example, when imaging multiple XY and Z locations,
wavelength and time can also be acquired in a single
experiment.
2
1
3
2
1
3
2
1
3
11
NIS-Elements Supported Devices
● yes ● optional
Features
NIS-Elements AR
NIS-Elements BR
NIS-Elements D
Nikon Devices & Cameras
Capture
RAM Capture
●
Time Lapse
●
●
●
Z-stack
●
●
●
Multichannel Fluorescence
●
●
Multi-position
●
●
Microscopes and Accessories
Eclipse TE2000-E
TE2000-PFS (Perfect Focus System)
Eclipse 90i
DIH-M/E Digital Imaging Head
Eclipse LV100A
Motorized Universal Epi-illuminator & Motorized Nosepiece
Nikon Motorized Z-Focus Accessory (RFA): optional
●
●
4D
●
6D
Cameras
Digital Sight 5M/2M Series
DS-1QM
DQC-FS
DXM1200 Series
Display and process
GUI
Multi-Window
Multi-Window
Single-Window
Annotation
●
●
●
Reference
●
●
●
ND Viewer
●
●
●
Filter, Morphology
●
●
Large Image
●
●
●
EDF
●
●
●
3D Deconvolution
●
2D RT Deconvolution
●
Live Compare
●
●
●
Macro
●
●
●
Advanced Interpreter
●
●
●
Segmentation
●
●
Time Measurement
●
●
Auto Measurement
●
●
● (Available from version 2.3)
●
●
●
Database
●
●
●
Vector Layer
●
●
●
Multidimensional File Format
●
●
●
Other Cameras & Devices
Cameras
Roper cameras: CoolSnap Series, Cascade Series
PixelLink cameras
Hamamatsu ORCA series cameras
Capture, display and multifunction
Optional
Prior (Stage): ProScan, OptiScan
Prior Filter wheels
Uniblitz (Shutter/Filter wheel) : Uniblitz Shutter Through TE2000-E Hub
Sutter Lambda 10-2, 10-3, DG4/5
Z-Focus module: Nikon RFA, Prior
Piezo PI E-665
Camera Emission Splitter: Optical Insights Dual View and Quad View
EXFO (Fiber Illuminator): EXFO X-Cite 120 series
Macro
Measurement
Report
Report Generator
Management
Operating Environment
Minimum PC Requirements:
CPU
Pentium IV 3.2 GHz or higher
RAM
1GB or higher
OS
Windows XP Professional SP2 English Version
Hard Disk 600MB or more required for installation
Video
1280X1024 dots, True Color mode
NIS-Elements is compatible with all common file formats, such as JP2, JPG, TIFF, BMP, GIF, PNG, ND2, JFF, JTF, AVI, ICS/IDS. ND2 is a special format for NIS-Elements.
ND2 allows storing sequences of images acquired during nD experiments. It contains information about the hardware settings and the experiment conditions and settings.
* Monitor images are simulated.
Company names and product names appearing in this brochure are their registered trademarks or trademarks.
Specifications and equipment are subject to change without any notice or obligation
on the part of the manufacturer. May 2006
©2006 NIKON CORPORATION
WARNING
TO ENSURE CORRECT USAGE, READ THE CORRESPONDING
MANUALS CAREFULLY BEFORE USING YOUR EQUIPMENT.
NIKON CORPORATION
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