[BioC] annotation information about ecoli2

Herve Pages hpages at fhcrc.org
Fri Nov 7 19:35:18 CET 2008

Hi Jim,

James W. MacDonald wrote:
> Thanks, Marc. I know you recently posted on the listserv which species
> have a .db0 file (and for which a annotation package can be built), but
> is there somewhere that an updated list is posted of the available species?

Get the real-time availability with:

  available.db0pkgs <- function()
    url <- "http://bioconductor.org/packages/release/data/annotation/src/contrib"
    pkgs <- available.packages(url)[, "Package"]
    pkgs <- pkgs[substr(pkgs, nchar(pkgs)-3, nchar(pkgs)) == ".db0"]
    names(pkgs) <- NULL

  > available.db0pkgs()
   [1] "arabidopsis.db0" "bovine.db0"      "canine.db0"      "chicken.db0"
   [5] "ecoliK12.db0"    "ecoliSakai.db0"  "fly.db0"         "human.db0"
   [9] "malaria.db0"     "mouse.db0"       "pig.db0"         "rat.db0"
  [13] "worm.db0"        "yeast.db0"       "zebrafish.db0"


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