Camera Settings

A digital camera mounted to a microscope port records images of the observed scene on a light-sensitive sensor, and transfers them to a computer. NIS-Elements supports various cameras differing from each other in resolution, frame-rate, sensor type, etc. Despite these differences, controlling different cameras is similar. The following features are included in the View > Acquisition Controls > [Camera name] Settings window depending on a particular camera type.

Note

Camera-specific features are described in the Cameras chapter.

The complete list of cameras and devices supported by NIS-Elements is available in a separate document.

Reference of Common Camera Settings

1 frame for Fast Timelapse, AE Compensation, AE Lock, Analog Gain, Auto White Balance, Averaging: %d/%d, Binning, Capture Bit Depth Channel, Clear Cycles, Clear Mode, Contrast, Conversion Gain, Cooling, Custom, Desired Temperature, Detector Mode, Dynamic Range, EM Gain Multiplier, Exposure, Exposure Time, Fast (Focus), FOV Size, Full Sensor, Gain, Gamma, High Quality Capture, Hue, Internal Shutter, Isolated Crop Mode, Keep Overlapped, Live Acceleration, Load Settings, Maintain Temperature on Camera Shutdown, Max gain, Maximum Exposure, Metering Mode, Mode, Multiplier, Noise Reduction, Offset, Optimal, Overillumination Tolerance, Quality (Capture), Readout Mode, Readout Rate, Readout Speed, Remove Settings, Resolution, ROI , Saturation, Save Settings, Scene Mode, Sensor Mode, Set Exact FPS, Sharpness, Speed up Triggered Acquisition + Different Exposures, Spurious Noise Filter, Target Maximum Intensity, Trigger Mode, Use Current ROI, Vertical Pixel Shift, White Balance

1 frame for Fast Timelapse

The camera head is equipped with 4 GB of memory available for fast capturing. Use this button to run acquisition with maximum available frame rate. However, the size of image sequence is limited to 4 GB.

Note

The actual frame rate depends on other settings (readout mode, sensor mode) and is limited by the read-out speed of the camera sCMOS chip. Maximum frame rate can be achieved with the combination of Rolling shutter and Overlap sensor mode.

AE Compensation

In automatic exposure modes, the compensation affects how optimum exposure settings (Exposure time and Gain) are calculated. The Compensation value is expressed in Exposure Values (EV). Setting the compensation to + 1.0 EV makes the image twice brighter (e.g. doubles the Exposure time or Gain).

AE Lock

This option makes the automatic exposure mode to lock the current exposure settings (Exposure time and Gain).

Analog Gain

Controls the Gain (Sensitivity) of the camera and strength of the camera analog signal before it is digitized. This setting affects image brightness.

Auto White Balance

This button performs an automatic white balancing. It calculates the right values and then adjusts the red, green, and blue image components in order to get a neutral white color. The Auto White gives the best results on color neutral (gray) scenes.

Averaging: .../%d

Averaging is a commonly used technique of decreasing noise in the image. In this method 2, 4, 8 or 16 consecutive frames are averaged together.

Binning

The binning mode provides considerably enhanced camera chip sensitivity by integrating more elements (pixels) together. E.g.: binning 4x4 integrates the signal from the area of 4x4 chip elements to one pixel of the resulting image. Smaller resolutions and faster frame rates are achieved using the binning modes.

Capture Bit Depth Channel

Select per-channel bit depth used for capturing.

Clear Cycles

This option enables you to decide, how many times the CCD chip should be cleared (reset). The set Clear Mode determines how often it is performed.

Clear Mode

Sets how often the CCD chip will be reset. Please, see the camera user manual for further details. These options are available:

  • Automatic

  • Never

  • Pre-exposure

  • Pre-sequence

  • Post-sequence

  • Pre and Post-sequence

  • Pre-Exposure and Post-Sequence

Contrast

Affects dynamics of how the luminosity is rendered. There are several modes for different illumination (contrast) scene situation.

Conversion Gain

This is a hardware pre-amplifier gain.

Cooling

The Qi1/Ri1 camera heads are equipped with a cooling system that enables the CCD chip to be cooled down by -5° or -10° of the current room temperature.

Warning

When cooling by -10°, there might be a risk of water condensing inside the camera head (depending on humidity inside the room).

Desired Temperature

Sets the target temperature of the CCD chip.

Detector Mode

Only in 12bit mode

Timed

A common mode for capturing images.

Strobe

If the camera controller is equipped with DS-RC switch, this mode needs to be selected to use the switch for capturing images.

Dynamic Range

Dynamic range of a camera sensor is defined by the largest possible signal that it can generate divided by the smallest possible signal. Higher bit dynamic ranges bring wider ranges of grayscale levels from each camera pixel.

EM Gain Multiplier

EM gain allows weak signals to be multiplied before any readout noise is added by the output amplifier, hence rendering the read noise negligible. There is a complex relationship (approximated to an exponential) between the value set and the actual level of multiplication. Typically, optimal signal-to-noise ratio and dynamic range is achieved between x1 to x300 EM Gain. When the setting exceeds the value of 300, the field gets highlighted red in order to notify you.

Exposure

Exposure mode determines how the Exposure time is calculated. Usually, the user can select between the automatic and the manual mode:

Auto Exposure

Automatically calculates the exposure time in order to achieve optimal brightness of the scene. Image quality is the priority, therefore longer exposure times are preferred.

Note

Depending on particular light conditions, the result of auto exposure may not be optimal for image acquisition.

Warning

Under- over-saturation may occur when switching between optical configurations. Please see Using Auto Exposure while Switching between Optical Configurations.

Note

Available exposure time range depends on the selected Format and Readout Speed.

Manual Exposure

The user selects both Exposure time and Gain manually.

Continuous AE

When selected, the automatic exposure time is calculated continuously. If brightness of the scene changes, the exposure time is adjusted so that the live image is not over- or under- saturated.

1 frame

Apart from common selection of time values, there is an extra option called 1 frame . When selected (by the button), the exposure time is calculated automatically in order for achieve maximum frame rate transferable by the camera link to the computer.

Exposure Time

Exposure time is the time of charge accumulation in a camera chip between two adjacent frames. Prolonging the exposure time increases brightness of the image as well as its quality (there will be less noise).

Fast (Focus), Quality (Capture)

The software provides two resolution presets. The first is used for live image and focusing and the second used for capturing. The formats then differ in image size and in frame rate (number of frames per second - fps). The higher the resolution is, the lower frame rate can be achieved. Available resolutions depend on the camera type.

Note

When switching between the formats while observing the live image, the size of the image on the screen is maintained - the zoom setting is changed instead. Only in some special cases, the behavior changes and the image size is changed instead of the zoom setting which is maintained.

Resolution

Note

If the resolution of 4076x3116 is used for capture and the scale is burnt to the image, the scale position is different from the Live image. This is a consequence. To keep the scale at the same position as in the Live image, use other resolutions for capture.

Note

The High Quality Capture mode is also supported. If the Quality is 16bit or the resolution of pixel shift mode is selected, you cannot uncheck the High Quality Capture check box.

FOV Size

FOV of a camera which has the sensor larger than the image from the microscope port (imaging circle) needs to be reduced. Otherwise, images captured with a too-large FOV Size would contain visible vignetting (will be darker at the periphery).

16 mm

Suits most conventional microscopes.

22 mm

Suits the Nikon Ti2-E microscope equipped with two filter-turrets.

25 mm

Suits the Nikon Ti2-E microscope equipped with a single filter-turret.

Gain

Controls the camera sensitivity. Increasing the gain increases brightness of the image, but decreases quality (the more random noise, the more streaky noise and color unevenness), and increases the frame rate indirectly by enabling shorter exposure times.

Gamma

The gamma correction maps the intensity of live signal exponentially to the gamma parameter. For gamma < 1, dark portions of the image are enhanced whereas for gamma > 1, image parts of higher intensities are enhanced.

Hue

Hue shifts image colors across the rainbow.

Live Acceleration

If the exposure time is too long, Live Acceleration helps you to make it shorter. The system automatically shortens the exposure time (so the frame rate rises), and the loss of intensity is compensated by increasing the gain (software multiplication). This procedure is not used upon Capture.

Internal Shutter

This option sets behavior of the camera internal shutter.

Open

Internal shutter is opened upon NIS-Elements and stays opened through the whole session. Only with one exception: if the Readout Mode is set to Normal 80kHz at 16bit, the shutter stays closed and opens only for exposures.

Closed

Internal shutter is closed upon NIS-Elements startup and gets opened only for exposures.

Automatic

Shutter is closed when the NIS-Elements is running. It opens only for acquisition.

Isolated Crop Mode

This option turns on the Isolated Crop Mode described within the Andor documentation. In this special mode, the size of chip is reduced and very high frame-rates can be achieved.

Set Exact FPS

Insert maximum frame rate (frames per second) you would like to use, this will prolong the total duration of the time-sequence in exchange for the reduced frame rate. This option may be useful especially when using the 1 frame for Fast Timelapse button with a small region of interest. Then the frame rate could get unreasonably high.

Note

The Limit MAX FPS is possible only when camera is in Normal mode (not overlapped), the maximum fps in normal mode is shown next to the edit box.

Keep Overlapped

If checked. The Clear Mode and Sensor Mode boxes are set to Automatic and become disabled. This mode produces maximal frame rate and decreases the list of exposure times (in the camera settings window). Only the times of 1 frame and longer become available.

Maintain Temperature on Camera Shutdown

If this option is checked, the camera maintains its temperature until the computer workstation shut down. The temperature will be maintained for example during NIS-Elements restart or when another camera is selected.

Max gain

Maximal camera gain.

Maximum Exposure

This is a safeguard of the time of the Auto Exposure. For quick exposure, it is convenient not to set this value too high.

Metering Mode

If this option is available, auto exposure can be calculated with an emphasis on overexposed peaks (Peak) or average pixel intensity (Average).

Mode

Defines how the Auto Exposure is performed. Average is suitable for bright field and Peak is better used for dark field.

Multiplier

Controls on-chip multiplication gain. There is complex relationship (approximated to an exponential) between the multiplier value and the level of multiplication - in other words, the value 2 does not mean the signal is multiplied two times.

Noise Reduction

If activated, it reduces noise generated by higher gain. NR works on interframe basis so you may notice some shadows on moving objects.

Offset

Sets the brightness of the image. It is a constant additive (positive or negative) changing all pixel values of the image. With negative offset value the dark image areas become pure black. Considering fluorescence microscopy, an appropriate offset setting can create continuous black background and thus help to enhance (together with gain or illumination enhancement) the contrast.

Readout Speed

The speed of digitization - influences frame rate and image quality. Higher frequencies increase frame rate, lower frequencies provide better image quality.

Readout Mode

Within this option you can select a combination of these parameters - readout speed and bit depth. The settings influences frame rate and image quality. Higher frequencies increase frame rate, lower frequencies offer better image quality.

Readout Rate

Select the readout speed 100 or 280 MHz. If speed is not crucial, leave 100 MHz.

ROI

Select this option to activate the camera ROI defined via the Size drop-down menu. When active, the current ROI size is displayed in brackets. The user can define a custom ROI via Size > Define ROI. The ROI can also be saved/loaded to/from a .camroi file (Size > Save ROI/Load ROI).

Caution

Nikon DS cameras have fixed-sized camera ROI, therefore width and height of the ROI cannot be changed. Only its position can be adjusted within this window.

ROI + Binning

If a binning is applied, this size which is the size of the ROI on the camera chip does not match the size of the resulting image. Also, if you define the ROI with the binning turned on, the pixel size displayed in the definition dialog does not match the value then displayed in the brackets because it includes the binning factor.

Full Sensor, Custom, Optimal

These buttons change camera ROI size.

Full Sensor

(requires: Local Option)

Sets the ROI to cover the maximum camera resolution.

Custom

Sets the ROI to a custom value. Use the Define ROI command in the pull-down menu to set the size manually.

Optimal

Sets the ROI to a computed size which ensures that no shading is visible on the image edges.

Note

Depending on the actual system configuration, some of the buttons may be hidden.

High Quality Capture

When this option is checked, images are not processed by the camera control unit, but are sent to the computer in a RAW format. The computer then processes the images into the RGB format. This mode produces images with less noise and better color fidelity. Of course, transfer of the RAW data is slower than the normal mode which causes a lower maximal frame-rate.

Overillumination Tolerance

Sets how many pixels should be white after the Auto exposure is performed. Use lower values (0.01%) for very bright (shining) objects (fluorescence). For common bright field, even 1% may be a good value.

Saturation

The amount of saturation determines how colors are rendered. More saturation produces richer colors. Less saturation makes the colors gray.

Save Settings, Remove Settings, Load Settings

Save the current camera settings by the Commands > Save Settings > New Setting... command and give it a name. Load the saved settings by selecting its name in the Commands > Load Settings list. To remove a setting, click on it inside the Commands > Remove Settings list.

Scene Mode

There are several camera settings presets optimized for a specific usage.

Neutral

Neutral preset.

Industrial:
Industrial: Wafer/IC

Wafer IC-Chip.

Industrial: Metal

Metal or ceramic.

Industrial: Circuit board

Circuit boards.

Industrial: FPD

Flat panel displays.

Biological:
Biological: Bright Field

Illuminated bright field.

Biological: HE

Illuminated Hematoxylin and eosin stain.

Biological: ELA

Illuminated enzyme labeled antibody method.

Biological: BF (with white LED)

LED illuminated bright field.

Asbestos

Asbestos.

Linear

Keeps linearity of the intensity when using a color camera.

Sensor Mode

This option sets the method of reading the CCD chip.

Automatic

This option makes the system to choose the best mode.

Normal

A standard mode where the exposure phase is followed by the readout phase. Please, see the camera user manual for further details.

Overlap

This mode enables the camera to achieve higher frame rates by reducing the exposure+readout time (the readout is performed simultaneously with the exposure of the next frame). Please, see the camera user manual for further details.

Frame Transfer

This mode enables the camera to achieve higher frame rates by reducing the exposure+readout time (the readout is performed simultaneously with the exposure of the next frame). Please, see the camera user manual for further details.

Sharpness

Some camera settings provide the sharpness control which affects how sharp edges in the image appear. Too much sharpness leads to over-saturated edges.

Speed up Triggered Acquisition + Different Exposures

Connect the Arm and the Ext. Trig connectors of the camera and enable this option. When you run triggered acquisition with the Use different exposures option enabled, it will speed up the performance (the camera will not have to wait for software triggers but will be controlled by the Arm triggering signal).

Spurious Noise Filter

This option reduces spurious noise. Try whether it has desirable influence on image quality.

Target Maximum Intensity

Restricts the maximum of image intensity after the auto exposure was applied. The value represents a percentage of the whole camera dynamic range.

Trigger Mode

Sets the exposure method.

Internal

The exposure time and the beginning of each frame acquisition is controlled by the software.

Strobe

In this mode, the beginning of each frame exposure is being controlled by external signal.

Bulb

The exposure time and frames timing are controlled by external signal connected to the camera.

Triggered by master camera

Having a dual camera system (or a special triggering device connected to the camera), you can use this mode. If the cameras Interval setting is set to No delay within the experiment or if the Live mode is run, the slave camera will be triggered only once so that both cameras will run simultaneously while single frames will not be synchronized. For all other settings, the trigger will be engaged once and all the subsequent frames will be controlled by the software as in the Internal mode.

Use Current ROI

The currently defined region of interest, set by the Define ROI command, can be switched on/off by checking this item.

Vertical Pixel Shift
Shift Speed

Please, see the camera user manual for further details

Vertical Clock Voltage Amplitude

Please, see the camera user manual for further details

White Balance

There are Red, Green and Blue Gain properties that control how colors are rendered. It is used to eliminate a color cast from white areas.