Coord. trans. graph

Usage

# S4 method for class 'SpatialData'
CTgraph(x)

# S4 method for class 'SpatialDataElement'
CTgraph(x)

# S4 method for class 'ANY'
CTgraph(x)

# S4 method for class 'SpatialData'
CTpath(x, i, j)

# S4 method for class 'SpatialDataElement'
CTpath(x, j)

# S4 method for class 'ANY'
CTpath(x)

CTplot(g, cex = 0.5, fac = 2, max = 10)

Arguments

x: SpatialData, an element, or SpatialDataAttrs.
i: character string; name of source node.
j: character string; name of target coordinate space.
g: base R graph; extracted with CTgraph.
cex: scalar numeric; controls fontsize of node labels.
fac, max: scalar numeric; node labels with nchar>max are split and hyphenated at position floor(nchar/fac)

Value

CTgraph: graph::graphAM object with nodes for each element and coordinate space, and edges for each transformation (if specified)
CTpath: list of transformations from i to j; length > 1 if type is "sequential", length-1 otherwise; each element specifies type and data of the transformation
CTplot: visualizes the element-coordinate space graph with Rgraphviz

Examples

x <- file.path("extdata", "blobs.zarr")
x <- system.file(x, package="SpatialData")
x <- readSpatialData(x, tables=FALSE)

# object-wide
g <- CTgraph(x)
CTplot(g)   


# one element
y <- label(x)
g <- CTgraph(y)
CTplot(g) 


# retrieve transformation(s) 
# from element to target space
CTpath(x, "blobs_labels", "sequence")
#> [[1]]
#> [[1]]$data
#> [[1]]$data[[1]]
#> [1] 3
#> 
#> [[1]]$data[[2]]
#> [1] 2
#> 
#> 
#> [[1]]$type
#> [1] "scale"
#> 
#> 
#> [[2]]
#> [[2]]$data
#> [[2]]$data[[1]]
#> [1] -50
#> 
#> [[2]]$data[[2]]
#> [1] 10
#> 
#> 
#> [[2]]$type
#> [1] "translation"
#> 
#>