public class VariantContextComparator extends Object implements Comparator<VariantContext>, Serializable
| Constructor and Description |
|---|
VariantContextComparator(Collection<VCFContigHeaderLine> headerLines)
Creates a VariantContextComparator from the given VCF contig header lines.
|
VariantContextComparator(List<String> contigs) |
VariantContextComparator(SAMSequenceDictionary dictionary) |
| Modifier and Type | Method and Description |
|---|---|
int |
compare(VariantContext firstVariantContext,
VariantContext secondVariantContext) |
static List<String> |
getSequenceNameList(SAMSequenceDictionary dictionary) |
boolean |
isCompatible(Collection<VCFContigHeaderLine> headerLines)
Returns true if the given header lines are from a file sorted according to this VariantContextComparator.
|
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, waitcomparing, comparing, comparingDouble, comparingInt, comparingLong, equals, naturalOrder, nullsFirst, nullsLast, reversed, reverseOrder, thenComparing, thenComparing, thenComparing, thenComparingDouble, thenComparingInt, thenComparingLongpublic VariantContextComparator(Collection<VCFContigHeaderLine> headerLines)
public VariantContextComparator(SAMSequenceDictionary dictionary)
public static List<String> getSequenceNameList(SAMSequenceDictionary dictionary)
public int compare(VariantContext firstVariantContext, VariantContext secondVariantContext)
compare in interface Comparator<VariantContext>public boolean isCompatible(Collection<VCFContigHeaderLine> headerLines)