java.lang.Object
- de.julielab.gene.candidateretrieval.SynonymIndexFieldNames

public class SynonymIndexFieldNames
extends Object

Field Summary

Fields
Modifier and Type	Field	Description
`static String`	`BIO_THESAURUS`	Priority 7
`static String`	`CHROMOSOME`
`static String`	`DESCRIPTION`
`static String`	`ECNUMBER`
`static String`	`ENTITY_TYPE`	The type of the entity denoted by this synonym, gene, protein or family.
`static String`	`FILTERED`	A boolean-numerical (0 or 1) value to indicate whether the value was recognized as being unspecific or otherwise non-helpful.
`static String`	`FULL_NAMES`	Priority 1
`static String`	`GENERIF`
`static String`	`GODESC`
`static String`	`ID_FIELD`
`static String`	`ID_FIELD_LEGACY`
`static String`	`INTERACTION`
`static String`	`LOOKUP_SYN_FIELD`	The index field name for the normalized gene / protein name.
`static String`	`LOOKUP_SYN_FIELD_EXACT`
`static String`	`LOOKUP_SYN_FIELD_NGRAMS`
`static String`	`LOOKUP_SYN_FIELD_STEMMED`
`static String`	`MAPLOCATION`
`static String`	`ORIGINAL_NAME`	The index field name for the original, unnormalized (however, lower-cased) gene / protein name.
`static String`	`OTHER_DESIGNATIONS`	Priority 3
`static String`	`PRIORITY`	A numerical priority where 1 is the highest priority.
`static String`	`PROTEIN_NAMES`	Priority 4
`static String`	`SOURCE`	The source of the ID, e.g.
`static String`	`STEMMED_NORMALIZED_NAME`	The index field name for the normalized and then token-wise stemmed gene / protein name.
`static String`	`SUMMARY`
`static String`	`SYMBOL`	Priority -1
`static String`	`SYMBOL_FROM_NOMCENCLATURE`	Priority 0
`static String`	`SYNONYMS`	Priority 2
`static String`	`TAX_ID_FIELD`
`static String`	`UNIPROT_NAMES`	Priority 5
`static String`	`VALUE_FAMILY_ID_PREFIX`
`static String`	`VARIANT_NAME`	The index field name for the normalized variant of the original gene / protein name.
`static String`	`XREFS`	Priority 6

Constructor Summary

Constructors
Constructor Description

SynonymIndexFieldNames()

Method Summary
- Methods inherited from class java.lang.Object
  clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

- Field Detail
  - ID_FIELD
```
public static final String ID_FIELD
```
    See Also:
    
    Constant Field Values
  - ID_FIELD_LEGACY
```
public static final String ID_FIELD_LEGACY
```
    See Also:
    
    Constant Field Values
  - LOOKUP_SYN_FIELD
```
public static final String LOOKUP_SYN_FIELD
```
    The index field name for the normalized gene / protein name.
    
    See Also:
    
    Constant Field Values
  - LOOKUP_SYN_FIELD_STEMMED
```
public static final String LOOKUP_SYN_FIELD_STEMMED
```
    See Also:
    
    Constant Field Values
  - LOOKUP_SYN_FIELD_NGRAMS
```
public static final String LOOKUP_SYN_FIELD_NGRAMS
```
    See Also:
    
    Constant Field Values
  - LOOKUP_SYN_FIELD_EXACT
```
public static final String LOOKUP_SYN_FIELD_EXACT
```
    See Also:
    
    Constant Field Values
  - ORIGINAL_NAME
```
public static final String ORIGINAL_NAME
```
    The index field name for the original, unnormalized (however, lower-cased) gene / protein name.
    
    See Also:
    
    Constant Field Values
  - VARIANT_NAME
```
public static final String VARIANT_NAME
```
    The index field name for the normalized variant of the original gene / protein name.
    
    See Also:
    
    Constant Field Values
  - STEMMED_NORMALIZED_NAME
```
public static final String STEMMED_NORMALIZED_NAME
```
    The index field name for the normalized and then token-wise stemmed gene / protein name.
    
    See Also:
    
    Constant Field Values
  - TAX_ID_FIELD
```
public static final String TAX_ID_FIELD
```
    See Also:
    
    Constant Field Values
  - PRIORITY
```
public static final String PRIORITY
```
    A numerical priority where 1 is the highest priority. The highest priority is given to official symbols, preferred names etc.
    
    See Also:
    
    Constant Field Values
  - FILTERED
```
public static final String FILTERED
```
    A boolean-numerical (0 or 1) value to indicate whether the value was recognized as being unspecific or otherwise non-helpful. For experimental purposes, these items are kept in the index with this flag set to 1.
    
    See Also:
    
    Constant Field Values
  - SOURCE
```
public static final String SOURCE
```
    The source of the ID, e.g. into which database do we map?
    
    See Also:
    
    Constant Field Values
  - ENTITY_TYPE
```
public static final String ENTITY_TYPE
```
    The type of the entity denoted by this synonym, gene, protein or family.
    
    See Also:
    
    Constant Field Values
  - CHROMOSOME
```
public static final String CHROMOSOME
```
    See Also:
    
    Constant Field Values
  - DESCRIPTION
```
public static final String DESCRIPTION
```
    See Also:
    
    Constant Field Values
  - GENERIF
```
public static final String GENERIF
```
    See Also:
    
    Constant Field Values
  - GODESC
```
public static final String GODESC
```
    See Also:
    
    Constant Field Values
  - INTERACTION
```
public static final String INTERACTION
```
    See Also:
    
    Constant Field Values
  - MAPLOCATION
```
public static final String MAPLOCATION
```
    See Also:
    
    Constant Field Values
  - SUMMARY
```
public static final String SUMMARY
```
    See Also:
    
    Constant Field Values
  - ECNUMBER
```
public static final String ECNUMBER
```
    See Also:
    
    Constant Field Values
  - VALUE_FAMILY_ID_PREFIX
```
public static final String VALUE_FAMILY_ID_PREFIX
```
    See Also:
    
    Constant Field Values
  - SYMBOL
```
public static final String SYMBOL
```
    Priority -1
    
    See Also:
    
    Constant Field Values
  - SYMBOL_FROM_NOMCENCLATURE
```
public static final String SYMBOL_FROM_NOMCENCLATURE
```
    Priority 0
    
    See Also:
    
    Constant Field Values
  - FULL_NAMES
```
public static final String FULL_NAMES
```
    Priority 1
    
    See Also:
    
    Constant Field Values
  - SYNONYMS
```
public static final String SYNONYMS
```
    Priority 2
    
    See Also:
    
    Constant Field Values
  - OTHER_DESIGNATIONS
```
public static final String OTHER_DESIGNATIONS
```
    Priority 3
    
    See Also:
    
    Constant Field Values
  - PROTEIN_NAMES
```
public static final String PROTEIN_NAMES
```
    Priority 4
    
    See Also:
    
    Constant Field Values
  - UNIPROT_NAMES
```
public static final String UNIPROT_NAMES
```
    Priority 5
    
    See Also:
    
    Constant Field Values
  - XREFS
```
public static final String XREFS
```
    Priority 6
    
    See Also:
    
    Constant Field Values
  - BIO_THESAURUS
```
public static final String BIO_THESAURUS
```
    Priority 7
    
    See Also:
    
    Constant Field Values
- Constructor Detail
  - SynonymIndexFieldNames
```
public SynonymIndexFieldNames()
```

Class SynonymIndexFieldNames

Field Summary

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Field Detail

ID_FIELD

ID_FIELD_LEGACY

LOOKUP_SYN_FIELD

LOOKUP_SYN_FIELD_STEMMED

LOOKUP_SYN_FIELD_NGRAMS

LOOKUP_SYN_FIELD_EXACT

ORIGINAL_NAME

VARIANT_NAME

STEMMED_NORMALIZED_NAME

TAX_ID_FIELD

PRIORITY

FILTERED

SOURCE

ENTITY_TYPE

CHROMOSOME

DESCRIPTION

GENERIF

GODESC

INTERACTION

MAPLOCATION

SUMMARY

ECNUMBER

VALUE_FAMILY_ID_PREFIX

SYMBOL

SYMBOL_FROM_NOMCENCLATURE

FULL_NAMES

SYNONYMS

OTHER_DESIGNATIONS

PROTEIN_NAMES

UNIPROT_NAMES

XREFS

BIO_THESAURUS

Constructor Detail

SynonymIndexFieldNames