show-SegmentedCells {spicyR} | R Documentation |
This outputs critical information about aSegmentedCells.
object |
A SegmentedCells. |
Information of the number of images, cells, intenisties, morphologies and phenotypes.
'show(object)'
### 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