countItems: Manually counting the number of cells in colonies

In RclusTool: Graphical Toolbox for Clustering and Classification of Data Frames

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, computeItems

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, dir.save=tempdir())

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

RclusTool documentation built on Feb. 4, 2020, 5:08 p.m.