plotTabset: Plot a tabset

In ccb-hms/MerfishData: Collection of public MERFISH datasets

Plot a tabset

Description

Plot a tabset of colData annotations of one or more SpatialExperiment objects over an image.

Usage

plotTabset(spe.list, img)

Arguments

spe.list	A named list of SpatialExperiment objects.
img	a raster object representing a bitmap image.

Value

None. Produces a tabset for rendering with rmarkdown.

Examples

    # create simulated data as described in the SpatialExperiment man page
    example("SpatialExperiment", package = "SpatialExperiment", echo = FALSE)
    spe <- spe_mol   

    # add simulated cell centroids
    s <- cbind(x = runif(20), y = runif(20))    
    spatialCoords(spe) <- s 

    # add simulated cell type and cell cycle annotation
    ct <- c("ct1", "ct2", "ct3")
    cc <- c("G1", "G2", "S", "M") 
    spe$type <- sample(ct, ncol(spe), replace = TRUE)
    spe$cycle <- sample(cc, ncol(spe), replace = TRUE)

    # create an example image
    hgrid <- hcl(0, 80, seq(50, 80, 10))
    img <- as.raster(matrix(hgrid, nrow = 4, ncol = 5))

    # plotTabset
    spe.list <- list(myseg = spe)
    plotTabset(spe.list, img)  

ccb-hms/MerfishData documentation built on April 24, 2023, 7:08 a.m.