Beefy Boxes and Bandwidth Generously Provided by pair Networks
XP is just a number
 
PerlMonks  

siRna prediction

by subhomoi.bk (Initiate)
on May 20, 2011 at 09:14 UTC ( #905884=perlquestion: print w/ replies, xml ) Need Help??
subhomoi.bk has asked for the wisdom of the Perl Monks concerning the following question:

plz help me to design a tool for siRNA prediction using perl.

Comment on siRna prediction
Re: siRna prediction
by marto (Chancellor) on May 20, 2011 at 09:17 UTC

      Thanks... but i m new to bioperl..plz help me on this..when i used the following code...an error msg comes "Target sequence not defined"..so where is $bio_seq?

      use Bio::Tools::SiRNA; my $sirna_designer = Bio::Tools::SiRNA->new( -target => $bio_seq, -rules => 'tuschl' ); my @pairs = $sirna_designer->design; foreach $pair (@pairs) { my $sense_oligo_sequence = $pair->sense->seq; my $antisense_oligo_sequence = $pair->antisense->seq; # print out results print join ("\t", $pair->start, $pair->end, $pair->rank, $sense_oligo_sequence, $antisense_oligo_sequence), " +\n"; }
Re: siRna prediction
by moritz (Cardinal) on May 20, 2011 at 09:25 UTC

      and with rounded corners and a padded top. Didn't you take notes in the CB?

      True laziness is hard work

      Bah, everyone knows mauve has more RAM.

      And it should have flames down the side. And fuzzy dice. And an attachment to julienne fries.

      And a pony.

      The cake is a lie.
      The cake is a lie.
      The cake is a lie.

Re: siRna prediction
by ww (Bishop) on May 20, 2011 at 11:55 UTC
    I'd guess that it'll be more marketable if the double helix pattern is a prominent part of the decoration (perhaps in gold, to contrast with the blue base recommended above), and that all graphic ads use a viewpoint that emphasize the way the tool's shape itself suggests a double helix.

Log In?
Username:
Password:

What's my password?
Create A New User
Node Status?
node history
Node Type: perlquestion [id://905884]
Approved by rovf
help
Chatterbox?
and the web crawler heard nothing...

How do I use this? | Other CB clients
Other Users?
Others wandering the Monastery: (16)
As of 2014-08-29 12:47 GMT
Sections?
Information?
Find Nodes?
Leftovers?
    Voting Booth?

    The best computer themed movie is:











    Results (280 votes), past polls