bio:tools:codonopttable
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bio:tools:codonopttable [2009/11/06 09:46] – 172.26.0.166 | bio:tools:codonopttable [2009/12/17 09:47] – 172.26.15.75 | ||
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http:// | http:// | ||
- | http:// | + | |
Installation from cpan | Installation from cpan | ||
- | < | + | < |
- | depends on GD::Graph | + | depends on **GD::Graph** and **Bio:: |
+ | |||
+ | http:// | ||
+ | |||
+ | ====USES or Examples==== | ||
+ | |||
+ | You can use this module in the following ways | ||
+ | < | ||
+ | use Bio:: | ||
+ | |||
+ | my $seqobj = Bio:: | ||
+ | |||
+ | -id => ' | ||
+ | -accession_number => ' | ||
+ | -alphabet => ' | ||
+ | -is_circular => 1, | ||
+ | -genetic_code => 1, | ||
+ | ); | ||
+ | </ | ||
+ | B<#If you wanna read from file> | ||
+ | < | ||
+ | my $seqobj = Bio:: | ||
+ | |||
+ | | ||
+ | | ||
+ | ); | ||
+ | </ | ||
+ | B<#If you have Accession number and want to get file from NCBI> < | ||
+ | |||
+ | -genetic_code => 1,); | ||
+ | |||
+ | my $myCodons = $seqobj-> | ||
+ | |||
+ | if($myCodons) | ||
+ | |||
+ | { | ||
+ | for my $each_aa (@$myCodons) | ||
+ | { | ||
+ | print " | ||
+ | print " | ||
+ | print " | ||
+ | print "RSCU Value : ", | ||
+ | print "RAC Value : ", | ||
+ | print " | ||
+ | } | ||
+ | } | ||
+ | </ | ||
+ | B<# To get the prefered codon list based on RSCU & RAC Values >< | ||
+ | |||
+ | while ( my ($amino_acid, | ||
+ | print " | ||
+ | </ | ||
+ | B<# To produce a graph between RSCU & RAC> # Graph output file extension should be GIF, we support GIF only | ||
+ | < | ||
+ | $seqobj-> |
bio/tools/codonopttable.txt · Last modified: 2010/06/30 19:52 by 172.26.15.75