[Bioperl-l] please recommend a book about next-generation sequencer -> bioperl

[Yoshiro Nagao]

Hi Frank,

Thank you very much for letting me know the important sites.

I will see them and learn.

Yoshiro

--- On Fri, 2014/3/7, Frank Schwach <fs5 at sanger.ac.uk> wrote:

> Hi Yoshiro,
> 
> There is no such book (AFAIK) and it really boils down to what exactly it is you want to do.
> One thing you will most likely be doing is working with BAM alignment files.
> Check out BIo::SamTools
> http://search.cpan.org/~lds/Bio-SamTools/lib/Bio/DB/Sam.pm
> for that.
> It's not part of BioPerl, so you need to install it separately.
> You should then also look up samtools: http://samtools.sourceforge.net/
> which is a very useful toolkit for working with sam/bam files, which you will certainly encounter. Again, this toolkit is not BioPerl (it's not written in Perl) but highly relevant to working with next-gen data.
> 
> 
> Frank
> 
> 
> 
> 
> On 07/03/14 01:21, Yoshiro Nagao wrote:
> > Dear all,
> > Please recommend a book(s) which contains information and codes
> > about applying BioPerl to the output from next generation sequencers (NGS)
> > (especially 454 and Illumina).
> > 
> > Yoshiro Nagao
> > 
> > 
> > _______________________________________________
> > Bioperl-l mailing list
> > Bioperl-l at lists.open-bio.org
> > http://lists.open-bio.org/mailman/listinfo/bioperl-l
> 
> 
> 
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