[BioC] Read big file!

[Martin Morgan]

Mohamed Lajnef wrote:
> Dear R-Users
> 
> i would like to read a big file (1000 lines and 1200000 columns) with R? 
> but this is impossible ! Does someone have a magic solution to my problem?
> 
> Otherwise I try a function to read by few columns this large file ( no 
> by lines!)?

on linux something like

   scan(pipe("cut -f 1000-2000 myfile.txt", open="r"), integer())

can sometimes be an effective way to select some of a very large number 
of columns. Sounds like SNPs, where personally I would parse these into 
a netCDF file for future easy access using the ncdf package.

Martin

> 
> Regards
> M
> 
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-- 
Martin Morgan
Computational Biology / Fred Hutchinson Cancer Research Center
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