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Author image Alessandro Vullo
and 1 contributors


The Kseq iterator


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
XS module wrapping around a hts_itr_t


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