Re: [R] Create Dot Chart
Hi, Here are three examples for something along those lines. The first uses the package lattice, 2 and 3 use ggplot2. There are lots of options, and you can tweak and customize these to your hearts content. dat - data.frame(group = factor(rep(0:1, each = 40), labels = c(Control, Treatment)), id = rep(1:20, each = 4), days = sample(1:120, 80, replace = TRUE) ) library(lattice) ## Example 1 ## dotplot(x = id ~ days, data = dat, group = group, auto.key = TRUE) library(ggplot2) ## Example 2 ## ggplot(data = dat, aes(x = days, y = id, colour = group)) + geom_point() + scale_y_continuous(breaks = unique(dat$id)) ## Example 3 ## ggplot(data = dat, aes(x = days, y = id)) + geom_point() + facet_grid(group ~ ., scales = free) + scale_y_continuous(breaks = unique(dat$id)) Hope that helps, Josh On Sun, Sep 19, 2010 at 7:46 AM, avsha38 avsha...@post.tau.ac.il wrote: Hello everyone... I would like to create a chart (see below), how can I do it with R? Any help, suggestion, samples... will be greatly appreciated. Thanks... Avi http://r.789695.n4.nabble.com/file/n2545921/DotChart.jpg -- View this message in context: http://r.789695.n4.nabble.com/Create-Dot-Chart-tp2545921p2545921.html Sent from the R help mailing list archive at Nabble.com. __ 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. -- Joshua Wiley Ph.D. Student, Health Psychology University of California, Los Angeles http://www.joshuawiley.com/ __ 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.
Re: [R] Create Dot Chart
?dotchart perhaps. --- On Sun, 9/19/10, avsha38 avsha...@post.tau.ac.il wrote: From: avsha38 avsha...@post.tau.ac.il Subject: [R] Create Dot Chart To: r-help@r-project.org Received: Sunday, September 19, 2010, 10:46 AM Hello everyone... I would like to create a chart (see below), how can I do it with R? Any help, suggestion, samples... will be greatly appreciated. Thanks... Avi http://r.789695.n4.nabble.com/file/n2545921/DotChart.jpg -- View this message in context: http://r.789695.n4.nabble.com/Create-Dot-Chart-tp2545921p2545921.html Sent from the R help mailing list archive at Nabble.com. __ 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. __ 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.
Re: [R] Create Dot Chart
Hi Josh, Great samples! Thanks a lot! I ran your code and saw the Dot Chart, looks like what I need. I would like to ask for your help with applying it to my file, coming from the Theoretical world making it tough for me to apply in the Code.. attached below is part of my dataset num1 is ID variable Grouping variable = ESHKOL_tert (factor with 3 levels: 1-3) T1 - T4 are the recurrent events (time in months from index for each subject) http://r.789695.n4.nabble.com/file/n2546019/recmi_dots.jpg thanks in advance, Avi -- View this message in context: http://r.789695.n4.nabble.com/Create-Dot-Chart-tp2545921p2546019.html Sent from the R help mailing list archive at Nabble.com. __ 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.
Re: [R] Create Dot Chart
On Sep 19, 2010, at 12:58 PM, avsha38 wrote: Hi Josh, Great samples! Thanks a lot! I ran your code and saw the Dot Chart, looks like what I need. I would like to ask for your help with applying it to my file, coming from the Theoretical world making it tough for me to apply in the Code.. attached below is part of my dataset I'm afraid not. If you had read the Posting Guide, (please do so now), you should have noted that only text files (with file extensions of .txt) will be accepted by the mail-server. You can follow the directions of the Posting Guide or you can paste in the output of dput() around you data.frame or matrix. num1 is ID variable Grouping variable = ESHKOL_tert (factor with 3 levels: 1-3) T1 - T4 are the recurrent events (time in months from index for each subject) http://r.789695.n4.nabble.com/file/n2546019/recmi_dots.jpg thanks in advance, Avi -- David Winsemius, MD West Hartford, CT __ 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.
Re: [R] Create Dot Chart
Hi Josh, Great samples! Thanks a lot! I ran your code and saw the Dot Chart, looks like what I need. I would like to ask for your help with applying it to my file, coming from the Theoretical world making it tough for me to apply in the Code.. attached below is part of my dataset num1 is ID variable Grouping variable = ESHKOL_tert (factor with 3 levels: 1-3) T1 - T4 are the recurrent events (time in months from index for each subject) http://r.789695.n4.nabble.com/file/n2546047/recmi.txt recmi.txt thanks in advance, Avi -- View this message in context: http://r.789695.n4.nabble.com/Create-Dot-Chart-tp2545921p2546047.html Sent from the R help mailing list archive at Nabble.com. __ 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.
Re: [R] Create Dot Chart
On Sep 19, 2010, at 1:49 PM, avsha38 wrote: Hi Josh, Great samples! Thanks a lot! I ran your code and saw the Dot Chart, looks like what I need. I would like to ask for your help with applying it to my file, coming from the Theoretical world making it tough for me to apply in the Code.. Then it's time to move away from the chalkboard and get practical at the keyboard. Start with the R Data Import/Export Manual which is mentioned and linked in the Further Resources section of the Posting Guide. Because of the irregular line length, your data needs the facilities provided by the fill argument to read.table(). You will them probably need to choose between learning the reshape function (not the easiest task) or the melt/cast combination in the reshape2 package. There are worked examples on the help pages and many more in the rhelp archives. attached below is part of my dataset num1 is ID variable Grouping variable = ESHKOL_tert (factor with 3 levels: 1-3) T1 - T4 are the recurrent events (time in months from index for each subject) http://r.789695.n4.nabble.com/file/n2546047/recmi.txt recmi.txt thanks in advance, Avi -- -- David. __ 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.
Re: [R] Create Dot Chart
Ahoy Avi, Sounds like you be wantin' a gander more explanation than 'til you get your Arrr legs. # Read in data # I chose to specify explicit classes because the ids and ESHKOL_tert # are really categorical data, so I made them factors # also your data was tab delimited, which I specified using the sep = \t dat - read.table(http://r.789695.n4.nabble.com/file/n2546047/recmi.txt;, header = TRUE, sep = \t, colClasses = c(factor, factor, rep(integer, 4)) ) # look at the STRucture of the newly created object # notice the first two things are factors # and the rest are 'int' or integer class str(dat) # load the reshape package for the melt function # I find this function easier to demonstrate with than # the reshape() function itself that David mentioned library(reshape) # reshape the data into a more amenable form # I am being explicit in this call, generally # one would do something much simpler: melt(dat, 1:2) would work dat2 - melt(data = dat, id.vars = c(num1, ESHKOL_tert), measure.vars = c(T1, T2, T3, T4), variable_name = times) # melt() calls this form molten, many people refer to it as # 'long' versus 'wide' # traditionally, 'wide' data has one row per person/thing # 'long' data has one row per time point # since you had T1 - T4, each id now gets 4 rows # so the table will be four times as long, checking this: nrow(dat2) == 4 * nrow(dat) # load the ggplot2 package to make the graph library(ggplot2) # Creating the actual graph ggplot(data = dat2, aes(x = value, y = num1)) + geom_point() + facet_grid(ESHKOL_tert ~ ., scales = free) # This may seem complicated, but it is fairly straightforward # ggplot() creates sort of the base of the graphic # it defines what the dataset is and what goes on the X and Y axes # geom_point() adds points to the graph, I could just as easily have used # geom_line() to get lines, etc. # facet_grid() facets the data by level of ESHKOL_tert (so you get 3 panels) # You might prefer the 'quick' way of plotting using ggplot2 qplot(x = value, y = num1, data = dat2, geom = point) + facet_grid(ESHKOL_tert ~ ., scales = free) # for further reading ?read.table # this is how we read the data in ?str # I cannot recommend this function enough # Assuming the reshape package is loaded ?melt # or for this particular case ?melt.data.frame # for the graph parts ?ggplot ?qplot You can also go to Hadley's website: http://had.co.nz/ggplot2/ He has a book to which I recommend if you will be using ggplot2 a lot. Speaking of books, the R website has a list of books on R, and there are a lot of really nice introductory ones there. http://www.r-project.org/doc/bib/R-books.html You can also find and learn a lot online and through the documentation (like I showed above). I am not really sure how you wanted to show time, id, the actual values, and group (ESHKOL) in one plot. So I did not do anything with time (T1 - T4). Cheers, Makes-a-terrible-pirate-Josh On Sun, Sep 19, 2010 at 10:49 AM, avsha38 avsha...@post.tau.ac.il wrote: Hi Josh, Great samples! Thanks a lot! I ran your code and saw the Dot Chart, looks like what I need. I would like to ask for your help with applying it to my file, coming from the Theoretical world making it tough for me to apply in the Code.. attached below is part of my dataset num1 is ID variable Grouping variable = ESHKOL_tert (factor with 3 levels: 1-3) T1 - T4 are the recurrent events (time in months from index for each subject) http://r.789695.n4.nabble.com/file/n2546047/recmi.txt recmi.txt thanks in advance, Avi -- View this message in context: http://r.789695.n4.nabble.com/Create-Dot-Chart-tp2545921p2546047.html Sent from the R help mailing list archive at Nabble.com. __ 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. -- Joshua Wiley Ph.D. Student, Health Psychology University of California, Los Angeles http://www.joshuawiley.com/ __ 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.
Re: [R] Create Dot Chart
Hi Josh Wow, I greatly appreciate you taking the time to help out. It works excellent!!! I am just a beginner with R; thanks a lot for your books recommendation, I will be using them. If I may ask you, I have about 300 records in the full file and once I ran the code with the full file, The values on the Y axis are not showing properly, as they overlap each other. Do you have any suggestion for solving that? Thanks again, Avi -- View this message in context: http://r.789695.n4.nabble.com/Create-Dot-Chart-tp2545921p2546250.html Sent from the R help mailing list archive at Nabble.com. __ 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.
Re: [R] Create Dot Chart
Hi: It seems to me that num1 is a nested factor within ESHKOL_tert. With that in mind, I redefined the two terms to be factors and redid Josh's plot as follows: dat3 - dat2 dat3 - transform(dat3, num1 = factor(num1), ESHKOL_tert = factor(ESHKOL_tert)) ggplot(data = dat3, aes(x = value, y = num1)) + geom_point() + facet_grid(ESHKOL_tert ~ ., scales = free) This yields a different appearance, showing that most of the num1 levels are in ESHKOL_tert 2, but the concept is the same. I like how ggplot2 'knows' about the nesting relationship. To see this, go into the original data frame dat and type with(dat, table(num1, ESHKOL_tert)) If you find that the values on the y-axis overlap each other, add (+) the following line to your ggplot() code: opts(axis.text.y = theme_text(size = 7)) If it's too large, lower the number, and vice versa. HTH, Dennis On Sun, Sep 19, 2010 at 2:21 PM, avsha38 avsha...@post.tau.ac.il wrote: Hi Josh Wow, I greatly appreciate you taking the time to help out. It works excellent!!! I am just a beginner with R; thanks a lot for your books recommendation, I will be using them. If I may ask you, I have about 300 records in the full file and once I ran the code with the full file, The values on the Y axis are not showing properly, as they overlap each other. Do you have any suggestion for solving that? Thanks again, Avi -- View this message in context: http://r.789695.n4.nabble.com/Create-Dot-Chart-tp2545921p2546250.html Sent from the R help mailing list archive at Nabble.com. __ 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. [[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.
