Package org.broadinstitute.hellbender.utils.read

Class ReadConstants

java.lang.Object

org.broadinstitute.hellbender.utils.read.ReadConstants

public final class ReadConstants
extends Object

Constants for use with the GATKRead interface

Field Summary

Fields

Modifier and Type	Field	Description
static htsjdk.samtools.ValidationStringency	DEFAULT_READ_VALIDATION_STRINGENCY	Value used as the default validation stringency for all read input
static final int	NO_MAPPING_QUALITY	Value used to represent the absence of a mapping quality in a read
static final String	NULL_SEQUENCE_STRING	Value used for String representation of a non-existent sequence
static final String	UNSET_CONTIG	Value used to represent the absence of a defined contig in a read
static final int	UNSET_POSITION	Value used to represent the absence of a defined start/end position in a read

Method Summary

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Details

DEFAULT_READ_VALIDATION_STRINGENCY

public static htsjdk.samtools.ValidationStringency DEFAULT_READ_VALIDATION_STRINGENCY

Value used as the default validation stringency for all read input

UNSET_POSITION

public static final int UNSET_POSITION

Value used to represent the absence of a defined start/end position in a read

See Also:

• Constant Field Values

UNSET_CONTIG

public static final String UNSET_CONTIG

Value used to represent the absence of a defined contig in a read

See Also:

• Constant Field Values

NO_MAPPING_QUALITY

public static final int NO_MAPPING_QUALITY

Value used to represent the absence of a mapping quality in a read

See Also:

• Constant Field Values

NULL_SEQUENCE_STRING

public static final String NULL_SEQUENCE_STRING

Value used for String representation of a non-existent sequence

See Also:

• Constant Field Values