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. If the Navigator window is open, the stage position in microns will be placed in the right 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, or the program can fit to the CTF if you have that option selected. See the FFT command help for details. The marker point can actually be placed outside of the image, but very few operations recognize that as a valid position: the stage position in the status bar, Go to Marker in the Navigator window, and the Shift-P hot key and To Marker in the Image Alignment & Focus control panel for shifting to the marker position.
Shift - Left mouse button click: Remove the marker point if one is set. This is useful for getting rid of unwanted rings drawn on an FFT or for showing the multiple Record pattern around the current Navigator point instead of around the marker.
Ctrl - Left mouse button click: When fitting the CTF to Thon rings in an FFT, do not search for astigmatism, just defocus.
Middle mouse button click: If the image is an FFT, the program will show the spatial frequency and periodicity (resolution) of the clicked position in the status bar.
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, as long as the mouse is over the image display window and the main program window has focus. If the mouse if over the Navigator window and not over the image window, it will scroll the Navigator even though the main program has focus. Similarly, when it is over the log window and not the image window, it will scroll the log without having to click on it.
When the Navigator window is open, the mouse buttons have additional functions:
|Button clicked||Default||Edit Mode||Adding Points/Polygon||Moving Item||Hole Finder Editing|
|Ctrl-Left||Select nearest item||Add nearest item to selection||Toggle nearest point exclusion|
|Left||Select nearest item||Add point||Move item|
|Ctrl-Left held down||Add points to selection as mouse passes over or near them||Toggle exclusion as mouse passes over points|
|Left Double-click||Delete current point if it is only selected item|
|Shift-Left Double-click||Remove nearby position from multiple Record pattern around current point if it is the only selected item|
|Middle||Add point to current group||Add point|
|Right||Move current point||Move last added point||Move item|
After finding points with the Hole Finder and before making them into Navigator points, the operations in the right column for including or excluding individual points take priority over other Navigator operations.
Menu shortcut keys: The keyboard can be used not only for all the hot keys listed next, but also to select almost any menu item by means of its shortcut keys. Press Alt and the shortcut key letter of each main menu item will be underlined. Holding Alt down, you can then press one of those letters to open that menu, and you will see a letter underlined for almost all menu entries. Press that letter to select that item or open a submenu, where more shortcut keys will be underlined.
F1 for help on menu items and dialog boxes: Pressing F1 while the mouse is over a menu item or dialog box will open the help for the given item. This is the easiest way to open the help for a menu item and it works regardless of whether the item is enabled. The ? button in each dialog box does the same thing as F1.
|-/_||Zoom an image down|
|=/+||Zoom an image up around the current center of the image|
|A||Toggle Acquire setting of current Navigator item|
|C||Toggle Corner point setting of current Navigator item|
|R||Toggle Registration point setting of current Navigator item|
|Ctrl B||Toggle 'Blank beam when screen down' in Low Dose control panel|
|Ctrl D||Toggle doing Ctffind fit when clicking on FFT|
|Ctrl E||Acquire image with Search parameters (or View camera parameters, if using View for Search)|
|Ctrl F||Acquire image with Focus parameters|
|Ctrl G||Autofocus, or set standard focus in low mag mode if there is no focus calibration there|
|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 V||Acquire image with View parameters|
|Ctrl Enter||Runs the script when editing in a script editor window.|
|Space bar||Stop or restart continuous image acquisition, or repeat last single image shot.|
|Esc||Stop camera acquisition and any running tasks.|
|F11||Invert contrast of currently displayed image (does not change underlying data).|
|F12||Show the currently displayed image in false color|
|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 H||Toggle the display of the crosshairs in the image window|
|Shift I||Set intensity|
|Shift L||Toggle live FFT (for continuously acquired images)|
|Shift M||Move beam to center marker point|
|Shift P||Set alignment shift of image in buffer A to bring marker point to center of
field, equivalent to right-mouse drag;
works with marker point outside the image.
|Shift R||Read an image from file|
|Ctrl-Shift R||Resize the main image window to fill the SerialEM frame.|
|Shift S||Toggle side-by-side image and FFT windows|
|Shift V||Toggle drawing of Navigator items between first and second press of Shift V|
|Shift X||Toggle the check box in Image Display control panel that controls display of 'Extra info'|
|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.