public class SAMRecordUtil
extends java.lang.Object
| Modifier and Type | Field and Description |
|---|---|
static java.util.List<java.lang.String> |
TAGS_TO_REVERSE |
static java.util.List<java.lang.String> |
TAGS_TO_REVERSE_COMPLEMENT |
| Constructor and Description |
|---|
SAMRecordUtil() |
| Modifier and Type | Method and Description |
|---|---|
static void |
reverseComplement(SAMRecord rec)
Reverse-complement bases and reverse quality scores along with known optional attributes that
need the same treatment.
|
static void |
reverseComplement(SAMRecord rec,
java.util.Collection<java.lang.String> tagsToRevcomp,
java.util.Collection<java.lang.String> tagsToReverse)
Reverse complement bases and reverse quality scores.
|
public static java.util.List<java.lang.String> TAGS_TO_REVERSE_COMPLEMENT
public static java.util.List<java.lang.String> TAGS_TO_REVERSE
public static void reverseComplement(SAMRecord rec)
TAGS_TO_REVERSE_COMPLEMENT TAGS_TO_REVERSE
for the default set of tags that are handled.public static void reverseComplement(SAMRecord rec, java.util.Collection<java.lang.String> tagsToRevcomp, java.util.Collection<java.lang.String> tagsToReverse)