Uses of Class
htsjdk.samtools.SAMProgramRecord

Packages that use SAMProgramRecord

Package	Description
htsjdk.samtools

Uses of SAMProgramRecord in htsjdk.samtools

Methods in htsjdk.samtools that return SAMProgramRecord

Modifier and Type	Method and Description
SAMProgramRecord	SAMFileHeader.createProgramRecord()
SAMProgramRecord	SAMFileHeader.getProgramRecord(java.lang.String pgId)

Methods in htsjdk.samtools that return types with arguments of type SAMProgramRecord

Modifier and Type	Method and Description
java.util.List<SAMProgramRecord>	SAMFileHeader.getProgramRecords()

Methods in htsjdk.samtools with parameters of type SAMProgramRecord

Modifier and Type	Method and Description
void	SAMFileHeader.addProgramRecord(SAMProgramRecord programRecord)
static void	SAMUtils.chainSAMProgramRecord(SAMFileHeader header, SAMProgramRecord program) Chains program in front of the first "head" item in the list of SAMProgramRecords in header.
boolean	SAMProgramRecord.equivalent(SAMProgramRecord that)
void	SAMRecordSetBuilder.setProgramRecord(SAMProgramRecord programRecord) Adds the given program record to the header, and assigns the PG tag to any SAMRecords created after it has been added.

Method parameters in htsjdk.samtools with type arguments of type SAMProgramRecord

Modifier and Type	Method and Description
void	SAMFileHeader.setProgramRecords(java.util.List<SAMProgramRecord> programRecords) Replace entire list of program records

Constructors in htsjdk.samtools with parameters of type SAMProgramRecord

Constructor and Description
SAMProgramRecord(java.lang.String id, SAMProgramRecord srcProgramRecord)