I did not see this listed in the documentation or in some of the great tutorials but I have an image that I need to remove the objects that intersect the edge of the image. Does anyone know a way to do this? Thanks, Kevin [[alternative HTML version deleted]]

Dear Kevin, thank you for your interest in EBImage! Although there is no ready-to- use function for removing objects at image boundaries you can easily implement one yourself similar to the following example: # ====================================== library(EBImage) x = readImage(system.file(file.path("images","nuclei.tif"), package="EBImage"), all = FALSE) y = thresh(x, w = 20, h = 20, offset = 0.1) objects = bwlabel(y) display(objects) # subset for boundary pixels dims = dim(objects) border = c(objects[1:dims[1],1], objects[1:dims[1],dims[2]], objects[1,1:dims[2]], objects[dims[1],1:dims[2]]) # extract object identifiers at the boundary ids = unique(border[which(border != 0)]) # create a mask containing objects at the boundary boundary = as.vector(objects) boundary[which(!(objects %in% ids))] = 0 boundary = Image(boundary, dims) display(boundary) # create a mask containing all objects that do not intersect the edge of the image inner = as.vector(objects) inner[which(objects %in% ids)] = 0 inner = Image(inner, dims) display(inner) # now you can use the inner mask to apply some function over the inner objects, e.g. compute their intensity range: tapply(x, inner, range) # ====================================== I hope you find this helpful. Best wishes, Andrzej On Tue, Apr 16, 2013 at 8:39 PM, Kevin <kevinjspring@gmail.com> wrote: > I did not see this listed in the documentation or in some of the great > tutorials but I have an image that I need to remove the objects that > intersect the edge of the image. Does anyone know a way to do this? > > Thanks, > > Kevin > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor@r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor > [[alternative HTML version deleted]]