Copyright [2015-2018] EMBL-European Bioinformatics Institute
Licensed under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License. You may obtain a copy of the License at
http://www.apache.org/licenses/LICENSE-2.0
Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.
Bio::DB::HTS::Constants -- Constants for use with SAM/BAM
use Bio::DB::HTS::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:
RFLAGS->{M_UNMAPPED} == 0x0008
Rishi Nag <rishi@ebi.ac.uk<gt>
Bio::Perl, Bio::DB::HTS, Bio::DB::Bam::Alignment
To install Bio::DB::HTS, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::DB::HTS
CPAN shell
perl -MCPAN -e shell install Bio::DB::HTS
For more information on module installation, please visit the detailed CPAN module installation guide.