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bhohner at umich.edu wrote:
How do i remove myself from this list? Quoting Nicholas Lewin-Koh <nikko at hailmail.net>:
Hi, following this thread I have seen several misunderstandings that I think should be cleared up. Firstly, we should be careful what is meant by "publication quality", on interpretation is for a particular journal, a good resolution graphic in the format they require. In general, the meaning refers to the quality and portability of the graphic for publishing in different media while retaining as much of the original detail as possible. Some journals require submission in MSworst, for importing graphics into a word document, wmf is microsucks vector format, and is probably the most suitable for most statistical graphics. For images a bitmap format like png or tiff is most suitable. I would avoid jpeg, as the main purpose of jpeg is compression. If you need to edit a graphic outside R, wmf, and svg will allow you to ungroup the graphics components and edit them individually in most good drawing programs. Personally I have had good experiences with svg and inkscape. For color graphics where colour gradients are important, I would recommend exporting and viewing the graphics in a program with good colour management. R is not tied to a colour management system and it is trial and error to get colours printed correctly. There has been some discussion of incorporating little cms, but that is probably a good "google summer of code" project. In regards to the post below, as of R 2.7, alpha blending is supported on most devices if R was compiled with cairo. This is the case for the windows distribution, and the default for configure when compiling from source on linux. <\begin rant> As a personal rant I would suggest that most journals don't publish publication quality statistical graphics, as most scientists don't produce them. Biological journals are full of crammed bar graphs with antennae on top, with six different fills, that as far as I can tell contain very little information. All the work done on how to represent information with grammar and aesthetics goes out the window in journal publications. <\end rant> My 2c. So flame me. Nicholas
------------------------------ Message: 2 Date: Sun, 01 Jun 2008 10:47:49 -0400 From: Phil Novack-Gottshall <pnovackg at westga.edu> Subject: Re: [R-sig-eco] Publication quality graphics in R To: r-sig-ecology at r-project.org Message-ID: <200806011448.m51EmWOO008811 at hypatia.math.ethz.ch> Content-Type: text/plain; charset="iso-8859-1"; format=flowed [Apologies if this is a duplicate; I seem to be having e-mail problems.] I've also had trouble dealing with formatting issues from R to a format acceptable for journals. But I found a really useful recommendation from Cadmus, the art folks for PNAS. Here's a useful site: http://cpc.cadmus.com/da/tutorials.jsp and http://art.cadmus.com/da/instructions/ps80_win.jsp They're not specific to R, but there's some good general advice. I, too, tend to save images as a .pdf (specificying final size and resolution), and then convert to TIF or EPS using the following (also advised from Cadmus): For EPS: Once you have a PDF file, you can open it with the ?full? version of Acrobat and then do a ?Save as EPS? ? or ? you can open your PDF with Illustrator and then ?Save as EPS.? For TIF: Open the PDF file from within Photoshop. This will allow you to determine resolution (typically, 600 DPI is ideal for most figures). While in Photoshop, go to the menu and click "Layer>Flatten Image", crop (trim) excess white space around the figure, scale it to the correct size, and then "Save As?" a TIF file using LZW (not JPEG or ZIP) compression. This usually works for the journals I've dealt with. And a benefit of saving directly as PDF is you can use the alpha functionality in color.palette() to set transparency, which is really useful when having overlaying colors. (To my knowledge, alpha is not allowed when plotting in the R window.) Phil
I'd like to hear from the list, how folks specify and export
presentation
quality and publication quality graphics with R. I've had problems when exporting graphics using the copy-to-clipboard option (both
bitmap
and metafile) and also when saving them as jpgs. They almost always seem to
look a
little funny (e.g. pixelation, symbols coming out distorted etc.). The only
option
that I've had much success with is saving them as pdf's, but that format is
less than
ideal when trying to incorporate a graphic into another document (e.g. Word or
Powerpoint),
and is often not the format requested by journals.
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Phil Novack-Gottshall pnovackg at westga.edu Assistant Professor Department of Geosciences University of West Georgia Carrollton, GA 30118-3100 Phone: 678-839-4061 Fax: 678-839-4071 http://www.westga.edu/~pnovackg ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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