[Bioperl-l] data into R from Perl arrays

Adam Witney awitney at sgul.ac.uk
Mon Apr 2 04:17:56 EDT 2012


The quickest way to do this specific example is probably to just save your R commands to a file (eg R_commands.R) and then run some kind of system/exec/backtick function in your perl script to invoke R, something like (untested):

#!/usr/bin/perl
use strict;
use warnings;
system( 'R --file R_commands.R' );

Alternatively if you want perl and R to be able to interact and pass data back and forth, you could use something like Statistics::R

http://search.cpan.org/~fangly/Statistics-R-0.27/lib/Statistics/R.pm

HTH

adam

On 2 Apr 2012, at 06:21, José Ramón Blas Pastor wrote:

> Hi,
> 
> a very simple doubt, but I do not know how to manage this.
> 
> I want to plot a histogram for all data in 'datos.txt'.
> 
> a) by using R:
> datos<-scan("datos.txt")
> pdf("xh.pdf")
> hist(datos)
> dev.off()
> 
> 
> b) How could I invoke R inside Perl to do the same??
> #!/usr/bin/perl
> open(DAT,"datos.txt");
> while (<DAT>) {
> chomp;
> push(@datos,$_);
> }
> #now I want a histogram of values in @datos
> 
> Thanks!!
> 
> JR
> 
> -- 
> José Ramón Blas - PhD
> Dept. Biochemistry - Medicine School
> University of Castilla-La Mancha
> C Almansa, 14
> 02006 Albacete (Spain)
> 
> Phone: +34 967599200 ext. 2958
> 
> _______________________________________________
> Bioperl-l mailing list
> Bioperl-l at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/bioperl-l




More information about the Bioperl-l mailing list