Maybe a bug in ggplot2::geom_rect? I'm Cceing this to Hadley Wickham, maybe he has an answer.
Rui Barradas Em 16-09-2012 17:04, John Kane escreveu:
-----Original Message----- From: ruipbarra...@sapo.pt Sent: Sun, 16 Sep 2012 13:13:47 +0100 To: jrkrid...@inbox.com Subject: Re: [R] qplot: plotting precipitation data Hello, Relative to the op's "request" for rectangls, I'm not understanding them.Neither am I really, I just googled a couple of sites for possible "chromatin precipitation" graphs and since the OP was not sure of the name of the geom made the assumption that they wanted a bar chart as it seemed like the simplest graph matching the 'rectanngles" statement. I was assuming a terminology or language problem here and I could not see any reason the OP wanted purely rectangles.In your plot using geom_bar, the levels of as.factor(start) are sorted ascending. If both > as.factor(mydata$start) [1] 5291000 10988025 11767950 11840900 12267450 12276675 Levels: 5291000 10988025 11767950 11840900 12267450 12276675 > as.factor(mydata$end) [1] 5291926 10988526 11768676 11841851 12268076 12277051 Levels: 5291926 10988526 11768676 11841851 12268076 12277051 also are, why isn't geom_rect ploting them by that order? p2 <- ggplot(mydata, aes(x = as.factor(start), y = peak)) p2 + geom_rect(aes(xmin = as.factor(start), xmax = as.factor(end), ymin = 0, ymax = peak)) The level 5291926 is place last. Shouldn't it be expected to plot as first?This is far beyond my knowledge of ggplot but I would certainly think it should. as.numeric( as.factor(mydata$start))) [1] 1 2 3 4 5 6 so why would we get something like 2 3 4 5 6 1 if I am reading this correctly?Rui Barradas Em 16-09-2012 00:20, John Kane escreveu:Thanks for the data. It makes things much easier. Do you want a bar chart (i.e. geom = bar in qplot or geom_bar in ggplot)? That sounds like what you mean when you speak of rectangles. If so try this ggplot) command -- I almost never use qplot() so I am not quite sure how to specify it there. p <- ggplot(mydata , aes(as.factor(start), peak )) + geom_bar(stat= "identity", ) p John Kane Kingston ON Canada-----Original Message----- From: hnorp...@googlemail.com Sent: Sat, 15 Sep 2012 18:39:54 +0200 To: r-help@r-project.org Subject: [R] qplot: plotting precipitation data Dear list, I wish to plot chromatin precipitation data: I would like to have a rectangles (x:end-start, y:peak) but I do not have an idea how to define x (in terms of qplot syntax) and to choose the correct geom. mydata is a subset of a larger file.mydatachrom start end peak 1 chr11 5291000 5291926 8 2 chr11 10988025 10988526 7 3 chr11 11767950 11768676 8 4 chr11 11840900 11841851 8 5 chr11 12267450 12268076 12 6 chr11 12276675 12277051 7dput(mydata)structure(list(chrom = structure(c(3L, 3L, 3L, 3L, 3L, 3L), .Label = c("chr1", "chr10", "chr11", "chr12", "chr13", "chr14", "chr15", "chr16", "chr17", "chr18", "chr19", "chr2", "chr3", "chr4", "chr5", "chr6", "chr7", "chr8", "chr9", "chrX"), class = "factor"), start = c(5291000L, 10988025L, 11767950L, 11840900L, 12267450L, 12276675L), end = c(5291926L, 10988526L, 11768676L, 11841851L, 12268076L, 12277051L), peak = c(8L, 7L, 8L, 8L, 12L, 7L)), .Names = c("chrom", "start", "end", "peak" ), row.names = c(NA, -6L), class = "data.frame") Thanks for some instructions. Hermann Norpois [[alternative HTML version deleted]] ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.____________________________________________________________ FREE 3D EARTH SCREENSAVER - Watch the Earth right on your desktop! ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.____________________________________________________________ FREE 3D MARINE AQUARIUM SCREENSAVER - Watch dolphins, sharks & orcas on your desktop! Check it out at http://www.inbox.com/marineaquarium
______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
