I assume you mean PDFs generated by R.  This topic has been addressed  
here: http://tolstoy.newcastle.edu.au/R/e2/help/07/05/17475.html

I have always just output the graphics then used an external PDF  
program (like Preview on the Mac) to do changes in file type, size  
reductions, etc.

Andrew Miles

On Jan 5, 2011, at 3:12 PM, Kurt_Helf@nps.gov wrote:

> Greetings
>     Does anyone have any suggestions for reducing pdf file size,
> particularly pdfs containing photos, without sacrificing quality?   
> Thanks
> for any tips in advance.
> Cheers
> Kurt
>
> ***************************************************************
> Kurt Lewis Helf, Ph.D.
> Ecologist
> EEO Counselor
> National Park Service
> Cumberland Piedmont Network
> P.O. Box 8
> Mammoth Cave, KY 42259
> Ph: 270-758-2163
> Lab: 270-758-2151
> Fax: 270-758-2609
> ****************************************************************
> Science, in constantly seeking real explanations, reveals the true  
> majesty
> of our world in all its complexity.
> -Richard Dawkins
>
> The scientific tradition is distinguished from the pre-scientific  
> tradition
> in having two layers.  Like the latter it passes on its theories but  
> it
> also passes on a critical attitude towards them.  The theories are  
> passed
> on not as dogmas but rather with the challenge to discuss them and  
> improve
> upon them.
> -Karl Popper
>
> ...consider yourself a guest in the home of other creatures as  
> significant
> as yourself.
> -Wayside at Wilderness Threshold in McKittrick Canyon, Guadalupe  
> Mountains
> National Park, TX
>
> Cumberland Piedmont Network (CUPN) Homepage:
> http://tiny.cc/e7cdx
>
> CUPN Forest Pest Monitoring Website:
> http://bit.ly/9rhUZQ
>
> CUPN Cave Cricket Monitoring Website:
> http://tiny.cc/ntcql
>
> CUPN Cave Aquatic Biota Monitoring Website:
> http://tiny.cc/n2z1o
>
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