show-SegmentedCells {spicyR} | R Documentation

## Show SegmentedCells

### Description

This outputs critical information about aSegmentedCells.

### Arguments

`object` | A SegmentedCells.

### Value

Information of the number of images, cells, intenisties, morphologies and phenotypes.

### usage

'show(object)'

### Examples

    ### Something that resembles cellProfiler data

    set.seed(51773)

    n = 10

    cells <- data.frame(row.names = seq_len(n))
    cells$ObjectNumber <- seq_len(n)
    cells$ImageNumber <- rep(1:2,c(n/2,n/2))
    cells$AreaShape_Center_X <- runif(n)
    cells$AreaShape_Center_Y <- runif(n)
    cells$AreaShape_round <- rexp(n)
    cells$AreaShape_diameter <- rexp(n, 2)
    cells$Intensity_Mean_CD8 <- rexp(n, 10)
    cells$Intensity_Mean_CD4 <- rexp(n, 10)

    cellExp <- SegmentedCells(cells, cellProfiler = TRUE)

    ### Cluster cell types
    markers <- cellMarks(cellExp)
    kM <- kmeans(markers,2)
    cellType(cellExp) <- paste('cluster',kM$cluster, sep = '')

    cellExp

[Package spicyR version 1.4.0 Index]