[BioC] reading data from Beadarray into R

Steve Lianoglou mailinglist.honeypot at gmail.com
Wed Sep 29 22:32:25 CEST 2010


On Wed, Sep 29, 2010 at 4:05 PM, Hajar Hassani Lahsinoui
<hajar.hassani at gmail.com> wrote:
> On Sep 29, 2010, at 9:48 PM, Steve Lianoglou wrote:
>> argets = read.table("/Users/hajarhassani/Documents/Image
>> Data/5513091009/BeadTypeFile.txt")
> Hi Steve,
> You were right:
> file.exists('BeadTypeFile.txt')
> [1] FALSE
>> targets = read.table("/Users/hajarhassani/Documents/Image
> + Data/5513091009/BeadTypeFile.txt")
> Error in file(file, "rt") : cannot open the connection
> In addition: Warning message:
> In file(file, "rt") :
>  cannot open file '/Users/hajarhassani/Documents/Image
> Data/5513091009/BeadTypeFile.txt': No such file or directory
> I tried changing the directory to the DVD they gave me the data on (instead of my HD), but still the same message. The thing is that I can open the txt files if I click on them from my HD (Illumicode,N,Mean GRN,Dev GRN), so they must be retreivable...

Maybe it's the space-in-the-directory thing.

Try creating some "experiment" folder on your desktop and copy all the
files you need into it, then:

R> targets <- read.table('/Users/hajarhassani/Desktop/experiment/BeadTypeFile.txt')

Steve Lianoglou
Graduate Student: Computational Systems Biology
 | Memorial Sloan-Kettering Cancer Center
 | Weill Medical College of Cornell University
Contact Info: http://cbio.mskcc.org/~lianos/contact

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