Edit Objects Manually
allows you create, remove and edit objects previously defined.
The interface will show the image that you selected as the guiding image, overlaid with colored outlines of the selected objects (or filled objects if you choose). This module allows you to remove or edit specific objects by pointing and clicking to select objects for removal or editing. Once editing is complete, the module displays the objects as originally identified (left) and the objects that remain after this module (right).
More detailed Help is provided in the editing window via the '?' button.
The pipeline pauses once per processed image when it reaches this module. You must press the Done button to accept the selected objects and continue the pipeline.
Available measurements Image measurements:
- Count: The number of edited objects in the image.
- Location_X, Location_Y: The pixel (X,Y) coordinates of the center of mass of the edited objects.
See also FilterObjects, MaskObject, OverlayOutlines, ConvertToImage.
Select the objects to be edited
Choose a set of previously identified objects
for editing, such as those produced by one of the
Name the edited objects
Enter the name for the objects that remain
after editing. These objects will be available for use by
Retain outlines of the edited objects?
Select Yes if you want to keep images of the outlines
of the objects that remain after editing. This image
can be saved by downstream modules or overlayed on other images
using the OverlayOutlines module.
Name the outline image
(Used only if you have selected to retain outlines of edited objects)
Enter a name for the outline image.
Numbering of the edited objects
Choose how to number the objects that
remain after editing, which controls how edited objects are associated with their predecessors:
- Renumber: The module will number the objects that remain
using consecutive numbers. This
is a good choice if you do not plan to use measurements from the
original objects and you only want to use the edited objects in downstream modules; the
objects that remain after editing will not have gaps in numbering
where removed objects are missing.
- Retain: This option will retain each object's original number so that the
edited object's number matches its original number. This allows any measurements you make from
the edited objects to be directly aligned with measurements you might
have made of the original, unedited objects (or objects directly
associated with them).
Display a guiding image?
Select Yes to display an image and outlines of the objects.
Select No if you do not want a guide image while editing
Select the guiding image
(Used only if a guiding image is desired)
This is the image that will appear when editing objects.
Choose an image supplied by a previous module.
Allow overlapping objects?
EditObjectsManually can allow you to edit an
object so that it overlaps another or it can prevent you from
overlapping one object with another. Objects such as worms or
the neurites of neurons may cross each other and might need to
be edited with overlapping allowed, whereas a monolayer of cells
might be best edited with overlapping off.
Select Yes to allow overlaps or select No
to prevent them.