biolockj.module.report.taxa

Class TaxaLevelTable

java.lang.Object

java.util.AbstractMap<K,V>

java.util.HashMap<String,HashMap<String,Double>>

biolockj.module.report.taxa.TaxaLevelTable

All Implemented Interfaces:

Serializable, Cloneable, Map<String,HashMap<String,Double>>

public class TaxaLevelTable
extends HashMap<String,HashMap<String,Double>>

See Also:

Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from class java.util.AbstractMap

AbstractMap.SimpleEntry<K,V>, AbstractMap.SimpleImmutableEntry<K,V>

Nested classes/interfaces inherited from interface java.util.Map

Map.Entry<K,V>

Constructor Summary

Constructors

Constructor and Description
TaxaLevelTable(String level)

Method Summary

Modifier and Type	Method and Description
Double	addValue(String sample, String taxon, Double value)
float	fillEmptyVals() Replace all null values in the maps with 0.
float	fillEmptyVals(Double value) Replace all null values in the maps with the given value.
String	getLevel()
List<String>	listSamples()
List<String>	listTaxa()
HashMap<String,Double>	newSampleRow(String sampleID)

Methods inherited from class java.util.HashMap

clear, clone, compute, computeIfAbsent, computeIfPresent, containsKey, containsValue, entrySet, forEach, get, getOrDefault, isEmpty, keySet, merge, put, putAll, putIfAbsent, remove, remove, replace, replace, replaceAll, size, values

Methods inherited from class java.util.AbstractMap

equals, hashCode, toString

Methods inherited from class java.lang.Object

finalize, getClass, notify, notifyAll, wait, wait, wait

Methods inherited from interface java.util.Map

equals, hashCode

Constructor Detail

TaxaLevelTable

public TaxaLevelTable(String level)

Method Detail

getLevel

public String getLevel()

newSampleRow

public HashMap<String,Double> newSampleRow(String sampleID)

listTaxa

public List<String> listTaxa()

listSamples

public List<String> listSamples()

addValue

public Double addValue(String sample,
                       String taxon,
                       Double value)

fillEmptyVals

public float fillEmptyVals()

Replace all null values in the maps with 0.

Returns:

the fraction of all values that were null;

fillEmptyVals

public float fillEmptyVals(Double value)

Replace all null values in the maps with the given value.

Parameters:

value - new value to use in place of null

Returns:

the fraction of all values that were null