Serializable, Cloneable, Map<HaplotypeBlock,HaplotypeProbabilities>, NavigableMap<HaplotypeBlock,HaplotypeProbabilities>, SortedMap<HaplotypeBlock,HaplotypeProbabilities>public class Fingerprint extends TreeMap<HaplotypeBlock,HaplotypeProbabilities>
AbstractMap.SimpleEntry<K extends Object,V extends Object>, AbstractMap.SimpleImmutableEntry<K extends Object,V extends Object>| Constructor | Description |
|---|---|
Fingerprint(String sample,
Path source,
String info) |
| Modifier and Type | Method | Description |
|---|---|---|
void |
add(HaplotypeProbabilities h) |
|
void |
filterSuspectSites() |
Attempts to filter out haplotypes that may have suspect genotyping by removing haplotypes that reach
a minimum confidence score yet have a significant fraction of observations from a third or fourth allele.
|
String |
getInfo() |
|
String |
getPrintableId() |
|
String |
getSample() |
|
Path |
getSource() |
|
void |
merge(Fingerprint other) |
Merges the likelihoods from the supplied Fingerprint into the likelihoods for this fingerprint.
|
equals, hashCode, isEmpty, toStringcompute, computeIfAbsent, computeIfPresent, equals, getOrDefault, hashCode, isEmpty, merge, putIfAbsent, removefinalize, getClass, notify, notifyAll, wait, wait, waitceilingEntry, ceilingKey, clear, clone, comparator, containsKey, containsValue, descendingKeySet, descendingMap, entrySet, firstEntry, firstKey, floorEntry, floorKey, forEach, get, headMap, headMap, higherEntry, higherKey, keySet, lastEntry, lastKey, lowerEntry, lowerKey, navigableKeySet, pollFirstEntry, pollLastEntry, put, putAll, remove, replace, replace, replaceAll, size, subMap, subMap, tailMap, tailMap, valuespublic String getSample()
public Path getSource()
public String getInfo()
public String getPrintableId()
public void add(HaplotypeProbabilities h)
public void merge(Fingerprint other)
public void filterSuspectSites()