It works, my job here is done.
Oh, except for:
-documentation (this is one i basically *need* to do)
-outputting real, physical instead of the symlinks i'm doing right now
-generate ebuild cache
-test loads and loads and loads of packages (help wanted)

Again, quickly a guide to use my project:
-Install layman from the kuroo overlay and g-cran from the science overlay
-Save the attached repositories.xml to /var/lib or whatever
-Add file:///var/lib/repositories.xml to "overlays" in /etc/layman/layman.cfg
-layman -a CRAN (or the two bioconductor repositories, which are in
repositories.xml as well)
-emerge -av dev-R/zoo (just one of the many packages in CRAN)

I spent some time helping wiktor prepare g-pear for g-common too, so
keep track of his work if you're interested in PEAR.

Have fun!
<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE repositories SYSTEM "http://www.gentoo.org/dtd/repositories.dtd";>
<repositories xmlns="" version="1.0">
  <repo quality="experimental" status="unofficial">
    <name><![CDATA[Bioconductor_bioc]]></name>
    <description><![CDATA[Bioconductor software packages]]></description>
    <homepage>http://www.bioconductor.org/</homepage>
    <source type="g-common">cran http://bioconductor.org/packages/devel/bioc/</source>
  </repo>
  <repo quality="experimental" status="unofficial">
    <name><![CDATA[Bioconductor_annotation]]></name>
    <description><![CDATA[Bioconductor annotation packages]]></description>
    <homepage>http://www.bioconductor.org/</homepage>
    <source type="g-common">cran http://bioconductor.org/packages/devel/data/annotation/</source>
  </repo>
  <repo quality="experimental" status="unofficial">
    <name><![CDATA[CRAN]]></name>
    <description><![CDATA[CRAN R extension packages]]></description>
    <homepage>http://www.r-project.org/</homepage>
    <source type="g-common">cran http://cran.r-project.org/</source>
  </repo>
</repositories>

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