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  • batel
    Junior Member
    • Feb 2015
    • 5

    Troubles installing ballgown

    Hi all,
    I have lots of BAM files and I want to use ballgown for differential ewxpression.
    I'm using the manuals (https://github.com/alyssafrazee/ballgown , http://master.bioconductor.org/packa...n/ballgown.pdf)
    in order to install it and use it..
    I have R version 3.1.2 and bioConductor version 3.0. The installation (from the README) seems fine, the last lines are:
    ** building package indices
    ** installing vignettes
    ** testing if installed package can be loaded
    * DONE (ballgown)

    The downloaded source packages are in
    ‘/tmp/RtmpNRWjaS/downloaded_packages’

    BUT, when I try to use ballgown() (just to see if it works), I get an error:
    Error: could not find function "ballgown"
    I tried also stattest() and it gave me the same error..
    I tried to use lines from the README and the manual but I got the same error.

    I believe I'm doing something wrong.. can someone help me understand what's going on?
    Thank you!!
    Batel
  • GenoMax
    Senior Member
    • Feb 2008
    • 7142

    #2
    Did you load ballgown package before trying other commands?

    > library(ballgown)

    Ballgown installed using following commands:

    > source("http://bioconductor.org/biocLite.R")
    > biocLite("ballgown")

    Comment

    • batel
      Junior Member
      • Feb 2015
      • 5

      #3
      oh I'm ashamed. I had another troubles installing it earlier so "library" didn't help me than, and somehow I forgot use it after the installation worked..
      Thank you very much!!!

      Comment

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