Package util

Class Constants.AttributesKeys

java.lang.Object

util.Constants.AttributesKeys

Enclosing class:

Constants

public abstract static class Constants.AttributesKeys
extends Object

A nested utility class that defines keys for various attributes used in the application.

This class provides a centralized location for defining attribute keys related to genomic data, ensuring consistency and reducing the risk of hardcoding values in multiple places. These keys are used to store and retrieve metadata for samples, features, sequence types, and variants.

Field Summary

Fields

Modifier and Type	Field	Description
static final String	ALLELIC_FREQUENCY	Key representing the frequency of a SequenceType with respect to Samples.
static final String	DIVERSITY_ALLELE	Key representing the diversity of alleles associated with a Feature.
static final String	DIVERSITY_PROTEOFORM	Key representing the diversity of proteoforms associated with a Feature.
static final String	FREQUENCY_DISRUPTED	Key representing the fraction of disrupted proteoforms with respect to a Sample or Feature.
static final String	FREQUENCY_FILTERED_CALLS	Key representing the fraction of filtered calls in a Sample.
static final String	FREQUENCY_REFERENCE	Key representing the fraction of reference alleles with respect to a Sample or Feature.
static final String	MEAN_COVERAGE	Key representing the mean coverage of a Sample over all of its calls.
static final String	MEAN_ENTROPY	Key representing the mean entropy of a Sample over all of its calls.
static final String	NUMBER_OF_ALLELES	Key representing the number of non-reference alleles associated with a feature.
static final String	NUMBER_OF_INDELS	Key representing the number of insertions and deletions (InDels) in a Sample.
static final String	NUMBER_OF_PROTEOFORMS	Key representing the number of non-reference proteoforms associated with a feature.
static final String	NUMBER_OF_SNVS	Key representing the number of substitutions or single nucleotide variants (SNVs) in a Sample.
static final String	SEQUENCE_LENGTH_DEVIATION	Key representing the net shift in sequence length of a SequenceType.
static final String	SO_EFFECTS	Key representing the Sequence-Ontology effects associated with a SequenceType.
static final String	VARIANT_FREQUENCY	Key representing the frequency of a Variant across all stored samples.

Constructor Summary

Constructors

Constructor	Description
AttributesKeys()

Method Summary

Methods inherited from class java.lang.Object

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

Field Details

FREQUENCY_REFERENCE

public static final String FREQUENCY_REFERENCE

Key representing the fraction of reference alleles with respect to a Sample or Feature.

See Also:

• Constant Field Values

FREQUENCY_DISRUPTED

public static final String FREQUENCY_DISRUPTED

Key representing the fraction of disrupted proteoforms with respect to a Sample or Feature.

See Also:

• Constant Field Values

NUMBER_OF_ALLELES

public static final String NUMBER_OF_ALLELES

Key representing the number of non-reference alleles associated with a feature.

See Also:

• Constant Field Values

NUMBER_OF_PROTEOFORMS

public static final String NUMBER_OF_PROTEOFORMS

Key representing the number of non-reference proteoforms associated with a feature.

See Also:

• Constant Field Values

SO_EFFECTS

public static final String SO_EFFECTS

Key representing the Sequence-Ontology effects associated with a SequenceType.

See Also:

• Constant Field Values

SEQUENCE_LENGTH_DEVIATION

public static final String SEQUENCE_LENGTH_DEVIATION

Key representing the net shift in sequence length of a SequenceType.

See Also:

• Constant Field Values

ALLELIC_FREQUENCY

public static final String ALLELIC_FREQUENCY

Key representing the frequency of a SequenceType with respect to Samples.

See Also:

• Constant Field Values

DIVERSITY_ALLELE

public static final String DIVERSITY_ALLELE

Key representing the diversity of alleles associated with a Feature.

See Also:

• Constant Field Values

DIVERSITY_PROTEOFORM

public static final String DIVERSITY_PROTEOFORM

Key representing the diversity of proteoforms associated with a Feature.

See Also:

• Constant Field Values

FREQUENCY_FILTERED_CALLS

public static final String FREQUENCY_FILTERED_CALLS

Key representing the fraction of filtered calls in a Sample.

See Also:

• Constant Field Values

NUMBER_OF_SNVS

public static final String NUMBER_OF_SNVS

Key representing the number of substitutions or single nucleotide variants (SNVs) in a Sample.

See Also:

• Constant Field Values

NUMBER_OF_INDELS

public static final String NUMBER_OF_INDELS

Key representing the number of insertions and deletions (InDels) in a Sample.

See Also:

• Constant Field Values

MEAN_COVERAGE

public static final String MEAN_COVERAGE

Key representing the mean coverage of a Sample over all of its calls.

See Also:

• Constant Field Values

MEAN_ENTROPY

public static final String MEAN_ENTROPY

Key representing the mean entropy of a Sample over all of its calls.

See Also:

• Constant Field Values

VARIANT_FREQUENCY

public static final String VARIANT_FREQUENCY

Key representing the frequency of a Variant across all stored samples.

See Also:

• Constant Field Values

Constructor Details

AttributesKeys

public AttributesKeys()