This thread seems freakishly similar to what you are asking....Scott

http://tolstoy.newcastle.edu.au/R/help/06/07/30127.html
On Wednesday, March 2, 2011 at 7:43 AM, SK MAIDUL HAQUE wrote: 
>  I have a text file that I have imported into R. It contains 3 columns and
> 316940 rows. The first column is vegetation plot ID, the second species
> names and the third is a cover value (numeric). I imported using the
> read.table function.
> 
> My problem is this. I need to reformat the information as a matrix, with the
> first column becoming the row labels and the second the column labels and
> the cover values as the matrix cell data. However, since the
> read.tablefunction imported the data as an indexed data frame, I can't use
> the columns
> as vectors. Is there a way around this, to convert the data frame as 3
> separate vectors? I have been looking all over for a function, and my
> programming skills are not great.
> 
> 
> -- 
> Sk Maidul Haque
> Scientific Officer-C
> Applied Spectroscopy Division
> Bhabha Atomic Research Centre, Vizag
> 
> Mo: 09666429050/09093458503
> 
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> 
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