Mouse and Keyboard Controls

Mouse actions in the image display window:

Left mouse button click: Place a marker point in the image and print the coordinates and value in the middle panel of the status bar. Several procedures make use of the position of a marker point.  If the image is an FFT that shows Thon rings, you can click at the position of the first minimum, and the program will show the estimated defocus in the status bar and draw a set of circles at the corresponding zeros of the CTF.  See the FFT command help for details.

Ctrl - middle mouse button click: Zoom up around the clicked point.

Ctrl - right mouse button click: Zoom down around the clicked point.

Left mouse button drag: Holding the left button down and moving the mouse will pan the image, if it is zoomed bigger than will fit in the window.

Shift - left mouse button drag: Draw a line for measuring a distance or angle. Press and hold the shift key, then press the left mouse button at the starting point of the line. Hold the button down and move the mouse to the desired endpoint of the line. The status bar will show a dynamic display of the line length and orientation as you move the endpoint, and the final values will be printed in the log window when you release the mouse button. You can crop out the image in a box around this line with the Crop Image command in the Process menu.

Ctrl - Shift - left mouse button drag: Draw a box for measuring size or cropping. Press and hold the shift and Ctrl keys, then press the left mouse button at one corner of the box. Hold the button down and move the mouse to the desired position of the other corner. The status bar will show a dynamic display of the box size as you move the corner. You can crop out this image area with the Crop Image command in the Process menu.  You can get its statistics with the Min/Max/Mean command in the Process menu.

Right mouse button drag: Holding the right button down and moving the mouse will change the alignment shift of the image. If the image is in buffer A, this will also change microscope image shift so that the next image acquired will match the image with this alignment shift. If there is a marker point on the image being aligned to, its position will show up in red. There is an option available to have particularly large moves with the right mouse button move the stage instead of change the microscope image shift.

Shift - right mouse button drag: Shifting the image in buffer A while holding the Shift key down will result in the stage being moved, rather than microscope image shift being changed.

Scroll wheel: The scroll wheel will zoom the image up and down unless the Ctrl key is down.

When the Navigator window is open, the mouse buttons have additional functions:

Button clicked Default Edit Mode Adding Points/Polygon Moving Item
Ctrl-Left Select nearest item Add nearest item to selection    
Left   Select nearest item Add point Move item
Left Double-click   Delete current point if it is only selected item    
Middle   Add point to current group Add point  
Right   Move current point Move last added point Move item

 

Hotkeys:

-/_ Zoom an image down
=/+ Zoom an image up around the current center of the image
A Toggle Acquire setting of current Navigator item
Ctrl A Autoalign
Ctrl B Toggle 'Blank beam when screen down' in Low Dose control panel
Ctrl D Tilt Down
Ctrl F Acquire image with Focus parameters
Ctrl G Autofocus, or set standard focus in low mag mode
Ctrl H Halt camera acquisition
Ctrl I Image information - min/max/mean and SD.
Ctrl L Acquire image with Preview parameters
Ctrl M Start a montage
Ctrl O Open old image file
Ctrl P Open camera parameter dialog box
Ctrl R Acquire image with Record parameters
Ctrl S Save image to file
Ctrl T Acquire image with Trial parameters
Ctrl U Tilt Up
Ctrl V Acquire image with View parameters
Space bar Stop or restart continuous image acquisition, or repeat last single image shot.
Esc Stop camera acquisition and any running tasks.
F1 Open context-sensitive help when the mouse is over a menu item or a dialog box.
F11 Invert contrast of currently displayed image (does not change underlying data).
Shift-F1 Will allow you to click on an item and open help for it.
Ctrl F1 Run script 1
Ctrl Fn Run script n, n = 1 to 10
Shift A Toggle Acquire state of Navigator items between first and second press of Shift A
Ctrl-Shift A Toggle Acquire state of all Navigator items
Shift B Binned FFT
Shift C Center beam by finding edges in current image
Shift D Delete Navigator points between first and second press of Shift D
Shift E Autocenter beam by taking an image using preset parameters
Shift F FFT
Shift I Set intensity
Shift L Toggle live FFT (for continuously acquired images)
Shift M Move beam to center marker point
Shift R Read an image from file
Ctrl-Shift R Resize the main image window to fill the SerialEM frame.
     The keys in the 6-key cluster above the arrow keys do the following:
PageUp display the previous occupied buffer (a lower letter).
PageDn display the next occupied buffer (a higher letter).
Home display buffer A, or the first occupied buffer.
End display the last occupied buffer (highest letter).
Insert display the buffer that is being autoaligned to.
Delete display the buffer that is being read into from file.
< Decrease step size for moving beam with Shift - arrow keys
> Increase step size for moving beam with Shift - arrow keys
Ctrl comma Decrease increment for changing percent C2/C3/IA with Ctrl up/down arrows
Ctrl period Increase increment for changing percent C2/C3/IA with Ctrl up/down arrows
   The four arrow keys will pan the image by small steps if it is zoomed bigger than the window.
Shift and an arrow key will move the beam by a small step.
Ctrl and up-arrow or down-arrow will increase or decrease percent C2/C3/IA by an increment.
The increments and operations for intensity change and beam movements are the same as
those applied through the Microscope Control Panel.