Bio::Matrix::IO::mlagan - A parser for the mlagan substitution matrix
use Bio::Matrix::IO; my $parser = Bio::Matrix::IO->new(-format => 'mlagan', -file => 'nucmatrix.txt'); my $matrix = $parser->next_matrix; my $gap_open = $parser->gap_open; my $gap_continue = $parser->gap_continue;
Use to read in and write out substitution matrix files suitable for use by mlagan.
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The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
Title : new Usage : my $obj = Bio::Matrix::IO::mlagan->new(); Function: Builds a new Bio::Matrix::IO::mlagan object Returns : an instance of Bio::Matrix::IO::mlagan Args :
Title : next_matrix Usage : my $matrix = $obj->next_matrix(); Function: parses a matrix file Returns : L<Bio::Matrix::Mlagan> Args : none
Title : write_matrix Usage : $obj->write_matrix($matrix) Function: Write out a matrix in mlagan format Returns : n/a Args : L<Bio::Matrix::Generic>
To install Bio::Seq, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::Seq
CPAN shell
perl -MCPAN -e shell install Bio::Seq
For more information on module installation, please visit the detailed CPAN module installation guide.