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Old 12-14-2011, 07:40 PM   #1
Amative
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Location: USA

Join Date: Dec 2011
Posts: 45
Default 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
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Old 01-16-2012, 05:19 AM   #2
sisch
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Default

Quote:
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
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Old 01-16-2012, 09:55 AM   #3
Amative
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Default

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 )
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