[R-sig-eco] remove from list

[Julian Burgos]

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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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