Changes for version 2.9
- PR#50 - https://github.com/Ensembl/Bio-DB-HTS/pull/50
- Guarantee resource deallocation by adding DESTROY methods to replace close methods
- add Bio::DB::HTS::VCF::HeaderPtr and Bio::DB::HTS::VCF::RowPtr packages
Documentation
The Kseq iterator
Modules
Read files using HTSlib including BAM/CRAM, Tabix and BCF database files
Add high-level methods to Bio::DB::HTS::Alignment
The HTS alignment object
Constants for use with SAM/BAM
Perl extension for accessing bgzip compressed and indexed FASTA using htslib
Bindings to Kseq
Entry from a Kseq iterator
Object passed to pileup() callback
Add high-level methods to Bio::DB::HTS::Pileup
Object representing the query portion of a BAM/SAM alignment
Object oriented access to the underlying tbx C methods
XS module wrapping around a tabix hts_itr_t
Object representing the query portion of a BAM/SAM alignment in NATIVE alignment
Read VCF/BCF data files
Provides
in lib/Bio/DB/HTS.pm
in lib/Bio/DB/HTS/FetchIterator.pm
in lib/Bio/DB/HTS.pm
in lib/Bio/DB/HTS/ReadIterator.pm
in lib/Bio/DB/HTS/Segment.pm
in lib/Bio/DB/HTS/Segment.pm
in lib/Bio/DB/HTS/AlignWrapper.pm
in lib/Bio/DB/HTS/VCF/Header.pm
in lib/Bio/DB/HTS/VCF/HeaderPtr.pm
in lib/Bio/DB/HTS/VCF/Row.pm
in lib/Bio/DB/HTS/VCF/RowPtr.pm
in lib/Bio/DB/HTS/VCF.pm
in lib/Bio/DB/HTS.pm
in lib/Bio/DB/HTS.pm