ND Dimensions

Navigation in ND2 Files

Control Bar

When an ND2 file is opened, its structure is pictured at the bottom of the image window.

  1. There is a time line with all captured images indicated by gray markers. The blue-highlighted marker indicates the currently observed image frame. You can browse the ND2 file by clicking inside the time line.

  2. Below the time line, loops of each dimension are indicated by blue rectangles.

    Note

    In case of a simple single channel time-lapse ND2 image, one time loop = one image frame = one blue rectangle.

  3. Each dimension can be browsed frame-by-frame or you can use the playback controls on the right side.

In specific cases the ND2 file control bar looks differently.

If the number of channels exceeds 10, the image is considered to be a spectral image and a lambda dimension is displayed instead of the standard channel tabs.

Playback Controls

Play Sequence

Plays all images of the dimension at a defined speed. If a selection is applied, only the selected images are included in the playback.

Stop Playing

Stops playing the sequence at the last displayed frame.

Previous Position, Next Position

Displays the previous/next frame of the dimension.

Decrease Playing Speed, Increase Playing Speed

Changes the playback speed by one step down/up.

Real Time Playing Speed On

Sets the playing speed to real-time (as the image was captured).

Maximum Playing Speed for Every Frame On

Sets the playing speed to maximum while the display of every frame is guaranteed (when the speed is set to maximum by the + button, some frames are usually omitted when playing the sequence depending on your graphics card).

Home Position

Displays the frame of the Z dimension that was set as home during the acquisition.

Tips

  • Detailed info about dimensions will be displayed after you click the leftmost button of the control bar (T>, Z>, ...).

  • Place the cursor over one of the dimensions. A tool-tip which displays statistics of the dimension appears.

Playing options 
Right-click the speed bar to display the following context menu and select the playing mode.

Back and Forth, Forward, Backward

Defines the direction how the image sequence will be played.

Repeat

Sets the repetitive infinite playback.

Stop on User Events

When you select this option and then press the Play Sequence button, a dialog window appears once the first user event is reached. The dialog window displays information about the reached user event. Use the Continue button to continue playing to the next event, or press the Stop button to stop the playback at the current frame. Within the window, you can also select the Do not ask again in this session (Always stop) option. Playing will then stop automatically on every user event but the window will not be shown.

Stop on All Events

Works as the stop function described above but stops the sequence on all types of events (events inserted from a macro, autofocus, stimulation, pause, etc.).

Maximum Speed

This command corresponds to the Maximum Playing Speed for Every Frame On button described above.

Real Time

This command corresponds to the Real-Time Playing Speed On button described above.

ND Views

There are several views which can display the ND2 files in various ways. Some views are available for some dimensions only. If a view is available for two or three dimensions of the ND2 file, a pull-down menu appears in the top image toolbar. There you can select the dimension to be displayed.

Note

When you switch the view, a new image window opens by default. This behavior can be changed within the Edit > Options command window so that only one view of an image will be opened at a time.

Main View

When you open an ND2 file, it opens in this view.

Slices View

(requires: EDF Module)

This view displays orthogonal XY, XZ, and YZ projections of the image sequence. (Requires Z or T dimension)

ND2 Information

Information about current frame of an ND2 document or live image can be displayed using the Show ND Information command from the image contextual menu. It displays information about current frame of the ND2 document or live image. All possible information (metadata) are displayed by default.

You can edit which information is displayed in the Label Properties dialog window. Right click the ND2 information field and select ND Info Properties.... Select displayed features from the Available ND information area and use the ^ button to insert them into the ND information text scheme area which defines the visible information. Use Format options tools to specify the data format (e.g. numeric precision, date format, etc.) and adjust the text appearance in the Text Box tab. Always show Acq. Time forbids removing the Acquisition Time information from the ND information text box.

To view the physical zoom of your image (how many times the image is magnified on your monitor compared to the real dimensions of the calibrated sample), click on Show Physical Zoom in the context menu over your image. The magnification is placed as an overlay information in the corner of your image.