On Wed, Sep 22, 2010 at 8:07 AM, <Daniel.Berner@unibas.ch> wrote:

> Hi there
> I have a solexa fastq file containing some 27 million reads (file size
> approx. 4 GB). my plan is to upload this into R for subsequent editing with
> ShortRead tools. The R version is 64-bit linux, the computer has 8 GB RAM.
> Can anybody provide a rough estimate of how long the input will take? hours,
> days...?
>

Depending on disk and network speeds, perhaps a few minutes.  8GB is pretty
small, though.  You'll have to give it a try to see if it all fits into
memory.

Sean

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