Bio::DB::Sam::Constants -- Constants for use with SAM/BAM
use Bio::DB::Sam::Constants; my $pad_flag = BAM_CPAD;
This module exports several constants for use with the SAM/BAM module. See the SAM documentation for their interpretation.
BAM_CIGAR_SHIFT BAM_CIGAR_MASK BAM_CMATCH BAM_CINS BAM_CDEL BAM_CREF_SKIP BAM_CSOFT_CLIP BAM_CHARD_CLIP BAM_CPAD
A hashref that maps flag values to human-readable names. For example:
FLAGS->{0x0008} == 'M_UNMAPPED'
The reverse of FLAGS:
FLAGS->{M_UNMAPPED} == 0x0008
Bio::Perl, Bio::DB::Sam, Bio::DB::Bam::Alignment
Lincoln Stein <lincoln.stein@oicr.on.ca>. <lincoln.stein@bmail.com>
Copyright (c) 2009-2015 Ontario Institute for Cancer Research.
This package and its accompanying libraries are free software; you can redistribute it and/or modify it under the terms of the Artistic License 2.0, the Apache 2.0 License, or the GNU General Public License (version 1 or higher). Refer to LICENSE for the full license text.
To install Bio::DB::Bam, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::DB::Bam
CPAN shell
perl -MCPAN -e shell install Bio::DB::Bam
For more information on module installation, please visit the detailed CPAN module installation guide.