![]() What do I get as output? A set of secondary objects are produced by this module, which can be used in downstream modules for measurement purposes or other operations. Provides more detailed information on the setting, if interested. Indicates a condition under which a particular setting may not work well.Our recommendation or example use case for which a particular setting is best used. ![]() The following icons are used to call attention to key items: What do the settings mean? See below for help on the individual settings. For example, an image processing module might be used to transform a brightfield image into one which captures the characteristics of a cell body flourescent stain. However, any image which produces these features can be used for this purpose. This is typically a fluorescent stain for the cell body, membrane or cytoskeleton (e.g., phalloidin staining for actin). An image highlighting the image features defining the cell edges.These are typically produced by an IdentifyPrimaryObjects module, but any object produced by another module may be selected for this purpose. An object (e.g., nuclei) identified from a prior module.What do I need as input? This module identifies secondary objects based on two types of input: In most cases, this is done by thresholding the image stained for the secondary objects. Finds the dividing lines between the secondary objects and the background of the image.Finds the dividing lines between secondary objects which touch each other.In order to identify the edges of secondary objects, this module performs two tasks: See the IdentifyPrimaryObjects module for details on how to identify a primary object. It is often easier to identify an organelle which is well separated spatially (such as the nucleus) as an object first and then use that object to guide the detection of the cell borders. In addition, cells often touch their neighbors making it harder to delineate the cell borders. We define an object as secondary when it can be found in an image by using another cellular feature as a reference for guiding detection.įor densely-packed cells (such as those in a confluent monolayer), determining the cell borders using a cell body stain can be quite difficult since they often have irregular intensity patterns and are lower-contrast with more diffuse staining. What is a secondary object? In CellProfiler, we use the term object as a generic term to refer to an identifed feature in an image, usually a cellular subcompartment of some kind (for example, nuclei, cells, colonies, worms). Identify Secondary Objects identifies objects (e.g., cell edges) using objects identified by another module (e.g., nuclei) as a starting point.
0 Comments
Leave a Reply. |
AuthorWrite something about yourself. No need to be fancy, just an overview. ArchivesCategories |