Uses of Package
htsjdk.samtools.reference

Packages that use htsjdk.samtools.reference

Package	Description
htsjdk.samtools
htsjdk.samtools.cram.ref
htsjdk.samtools.reference
htsjdk.samtools.sra

Classes in htsjdk.samtools.reference used by htsjdk.samtools

Class and Description
ReferenceSequenceFile An interface for working with files of reference sequences regardless of the file format being used.

Classes in htsjdk.samtools.reference used by htsjdk.samtools.cram.ref

Class and Description
ReferenceSequenceFile An interface for working with files of reference sequences regardless of the file format being used.

Classes in htsjdk.samtools.reference used by htsjdk.samtools.reference

Class and Description
FastaSequenceIndex Reads a fasta index file (.fai), as generated by `samtools faidx`.
ReferenceSequence Wrapper around a reference sequence that has been read from a reference file.
ReferenceSequenceFile An interface for working with files of reference sequences regardless of the file format being used.

Classes in htsjdk.samtools.reference used by htsjdk.samtools.sra

Class and Description
ReferenceSequence Wrapper around a reference sequence that has been read from a reference file.
ReferenceSequenceFile An interface for working with files of reference sequences regardless of the file format being used.