This
module provides functions for image stack display, editing and image
processing. It is accessed from menu
: Function : Image Stack Editor.
Image
Stack Display & Editing
New
: Load a new image stack (MRC format).
Add
: Append another image stack to the existing one.
Save
: Save the image stack in the editor.
Extract
: Extract the selected image frames and remove the rest.
Delete
: Remove the selected image frames from the editor.
Clear
: Clear the image frame selection.
The image stack in the editor can be browsed through the arrow-buttons
in the Display
Parameters box. Two keyboard short-cuts are defined to
facilitate the browsing: "page-up" for the previous page, and
"page-down" for the next page. The starting frame of display can be
customized
at From,
and the size of display can be defined at Scale.
The image display quality takes one of three levels:
"Normal", "Fine" and "Super". The "Normal" quality is recommended for a
newly opened image stack. After a new starting frame or another display
quality is chosen, click Display
to refresh the graphics window. The sequential label of image frames
can
be toggled by the ID
button.
Particle
Image Frame & Coordiantes Synchronization
When a set of particles selected from a micrograph is stored into an
image stack, the particle selection in the micrograph and the image
frames in the stack editor can be
synchronized - any "extraction" or "deletion" operation occurred in the
editor is
reflected in the particle selections overlaid on the micrograph, and
vice versa. This function is active when both the micrograph and the
corresponding particle stack are opened. Operationally, when a particle
selection session completes, save the image stack and open it in Image
Stack Editor (or simply press the button ). The
system will prompt the user to synchronize whenever the
stack is modified. The user can make whatever changes in the particle
selection and switch back and forth between the micrograph display and
the editor.
Image
Processing Functions
Normalization
: Normalize each frame of the image stack to N (0, 1).
Intensity
Scaling
: Image intensity scaling by "k * I + c". A negative value
of "k"
will invert the image contrast.
Band-pass
Filter
: Apply a band-pass filtering. Band-limits are in the unit of
Å.
Cropping/Padding
: Crop or Pad image frame size (no resampling).
Frame
Resampling : Resample each image frame of the stack.
Pixel
Binning : Crop or Pad image frame size (no resampling).
Rotational
Average : Calculate the rotational average of each image frame.
Rotational
Sum All : Add up all rotationally averaged images.
Pixel-wise
Sum All : Add up all image frames.
Some of the functions require parameter input, which can be defined in
the value boxes below. Click the Apply
button to activate the function. |