Methods for `Centroids`

objects

```
# S3 method for Centroids
Cells(x, ...)
# S3 method for Centroids
GetTissueCoordinates(object, full = TRUE, ...)
# S3 method for Centroids
Radius(object, ...)
# S3 method for Centroids
RenameCells(object, new.names = NULL, ...)
# S3 method for Centroids
Theta(object)
# S3 method for Centroids
is.finite(x)
# S3 method for Centroids
is.infinite(...)
# S3 method for Centroids
length(x)
# S3 method for Centroids
lengths(x, use.names = TRUE)
# S3 method for Centroids
subset(x, cells = NULL, ...)
# S4 method for Centroids,character,ANY,ANY
[(x, i, j, ..., drop = TRUE)
# S4 method for Centroids,numeric,ANY,ANY
[(x, i, j, ..., drop = TRUE)
# S4 method for Centroids
show(object)
```

- x, object
A

`Centroids`

object- ...
Arguments passed to other methods

- full
Expand the coordinates to the full polygon

- new.names
vector of new cell names

- use.names
Ignored

- i, cells
A vector of cells to keep; if

`NULL`

, defaults to all cells- j, drop
Ignored

`GetTissueCoordinates`

: A data frame with three columns:

“

`x`

”: the x-coordinate“

`y`

”: the y-coordinate“

`cell`

”: the cell name

If `full`

is `TRUE`

, then each coordinate will indicate a vertex
for the cell polygon; otherwise, each coordinate will indicate a centroid
for the cell

`Radius`

The radius of the centroids

`RenameCells`

: `object`

with the cells renamed to
`new.names`

`Theta`

: The offset angle in degrees

`is.finite`

: `TRUE`

if the centroids are polygonal,
`FALSE`

if circular

`is.infinite`

: The opposite of `is.finite`

`length`

: `0`

if the centroids are circular, otherwise the
number of sides of the polygonal centroid

`lengths`

: An `rle`

object for the cells

`subset`

, `[`

: `x`

subsetted to the cells specified
by `cells`

/`i`

`show`

: Invisibly returns `NULL`

`GetTissueCoordinates`

: Get cell spatial coordinates

`Radius`

: Get the centroid radius

`RenameCells`

: Update cell names

`Theta`

: Get the offset angle

`is.finite`

, `is.infinite`

: Test to see if the centroids
are circular or polygonal

`length`

: Get the number of sides for the polygonal centroid

`lengths`

: Generate a run-length encoding of the cells present

`subset`

, `[`

: Subset a `Centroids`

object to
certain cells

`show`

: Display an object summary to stdout

Segmentation layer classes:
`Centroids-class`

,
`Molecules-class`

,
`Molecules-methods`

,
`Segmentation-class`

,
`Segmentation-methods`