CreateFOV: Create Spatial Coordinates

In mojaveazure/seurat-object: Data Structures for Single Cell Data

Create Spatial Coordinates

Description

Create Spatial Coordinates

Usage

CreateFOV(coords, ...)

## S3 method for class 'Centroids'
CreateFOV(
  coords,
  molecules = NULL,
  assay = "Spatial",
  key = NULL,
  name = NULL,
  ...
)

## S3 method for class 'data.frame'
CreateFOV(
  coords,
  type = c("segmentation", "centroids"),
  nsides = Inf,
  radius = NULL,
  theta = 0L,
  molecules = NULL,
  assay = "Spatial",
  key = NULL,
  name = NULL,
  ...
)

## S3 method for class 'list'
CreateFOV(coords, molecules = NULL, assay = "Spatial", key = NULL, ...)

## S3 method for class 'Segmentation'
CreateFOV(
  coords,
  molecules = NULL,
  assay = "Spatial",
  key = NULL,
  name = NULL,
  ...
)

Arguments

coords	Spatial coordinates
...	Arguments passed to other methods
molecules	A data.frame with spatially-resolved molecule information or a Molecules object
assay	Name of associated assay
key	Key for these spatial coordinates
name	When coords is a data.frame, Centroids, or Segmentation, name to store coordinates as
type	When providing a data.frame, specify if the coordinates represent a cell segmentation or voxel centroids
nsides	The number of sides to represent cells/spots; pass Inf to plot as circles
radius	Radius of shapes when plotting
theta	Angle to adjust shapes when plotting

Value

A FOV object

See Also

FOV-class

mojaveazure/seurat-object documentation built on Nov. 22, 2024, 11:36 p.m.