countItems: Manually counting the number of cells in colonies

countItemsR Documentation

Manually counting the number of cells in colonies

Description

Display the profile and the image of each particle and allow the user to manually count the number of cells by simple left-clicking on each of them.

Usage

countItems(profile, feature = NULL, imgdir = NULL, image = NULL)

Arguments

profile

matrix of profile data (signals in columns).

feature

vector of features data.

imgdir

character vector specifying the path of the images directory.

image

character vector specifying the name of the considered image in imgdir.

Details

countItems displays the profile and the image of each particle and allows the user to manually count the number of cells by simple left-clicking on each of them

Value

nbItemsTot number of cells manually counted on each image.

See Also

itemsModel, computeItemsSample

Examples

 
dat <- rbind(matrix(rnorm(100, mean = 2, sd = 0.3), ncol = 2), 
             matrix(rnorm(100, mean = 4, sd = 0.3), ncol = 2), 
             matrix(rnorm(100, mean = 6, sd = 0.3), ncol = 2))
colnames(dat) <- c("x","y")
tf1 <- tempfile()
write.table(dat, tf1, sep=",", dec=".")

sig <- data.frame(ID=rep(1:150, each=30), SIGNAL=rep(dnorm(seq(-2,2,length=30)),150))
tf2 <- tempfile()
write.table(sig, tf2, sep=",", dec=".")

x <- importSample(file.features=tf1, file.profiles=tf2)

nbItems <- countItems(x$profiles[[1]])




RclusTool documentation built on May 29, 2024, 5:23 a.m.