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  • Degseq Question

    Hello All,

    I am new here in this awesome forum, new to the topics you guys talking about as well. I've read about Degseq and I'm trying to work on it. So, I have installed the R and Degseq and now as a beginner I am working on the example provided in their manual with sample data that comes with Degseq. they started the example with the following command, which went fine:
    > library(DEGseq)
    Then this:
    >geneExpFile <- system.file("extdata", "GeneExpExample5000.txt",+ package = "DEGseq")

    This one keeps returns this error msg:

    Error: unexpected '=' in "geneExpFile <- system.file("extdata", "GeneExpExample5000.txt",+ package ="


    Any Help is appreciated

  • #2
    Originally posted by Amative View Post
    Then this:
    >geneExpFile <- system.file("extdata", "GeneExpExample5000.txt",+ package = "DEGseq")
    Hey there,

    I had a similar problem when I started with R and DEGseq.
    There is a problem where the R syntax and the DEGseq tutorial collide.

    So in R on the console every line begins with a ">" However you never input this character, it's just there. If you then type a multilin statement, R shows by a "+" that this line is just continuing the line above.

    Therefore if you copy and paste the examples, you have to remove the > and + characters, as in:
    geneExpFile <- system.file("extdata", "GeneExpExample5000.txt", package = "DEGseq")

    Also "r getting started" is a good google query to get started with R.

    Best,
    Simon

    Comment


    • #3
      Thanks Simon,

      geneExpFile <- system.file("extdata", "GeneExpExample5000.txt",+ package = "DEGseq")

      should be

      geneExpFile <- system.file("extdata", "GeneExpExample5000.txt", package = "DEGseq")

      SO, I just removed the + sign )

      Comment

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