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B

BeaconIdBeaconConverter - Class in com.dnastack.bob.service.converter.impl
Beacon converter returning the ID of the beacon.
BeaconIdBeaconConverter() - Constructor for class com.dnastack.bob.service.converter.impl.BeaconIdBeaconConverter
 
BeaconIdWithoutOrganizationBeaconConverter - Class in com.dnastack.bob.service.converter.impl
Beacon converter returning the ID of the beacon without the organization ID prefix.
BeaconIdWithoutOrganizationBeaconConverter() - Constructor for class com.dnastack.bob.service.converter.impl.BeaconIdWithoutOrganizationBeaconConverter
 
BracketsAlleleConverter - Class in com.dnastack.bob.service.converter.impl
Allele converter with indels converted to long strings and wrapped in angled brackets (url encoded).
BracketsAlleleConverter() - Constructor for class com.dnastack.bob.service.converter.impl.BracketsAlleleConverter
 

C

ChrPrefixChromosomeConverter - Class in com.dnastack.bob.service.converter.impl
Converter of chromosomes to their value prefixed with "chr".
ChrPrefixChromosomeConverter() - Constructor for class com.dnastack.bob.service.converter.impl.ChrPrefixChromosomeConverter
 
com.dnastack.bob.service.converter.impl - package com.dnastack.bob.service.converter.impl
 
com.dnastack.bob.service.converter.util - package com.dnastack.bob.service.converter.util
 
convert(Beacon) - Method in class com.dnastack.bob.service.converter.impl.BeaconIdBeaconConverter
 
convert(Beacon) - Method in class com.dnastack.bob.service.converter.impl.BeaconIdWithoutOrganizationBeaconConverter
 
convert(String) - Method in class com.dnastack.bob.service.converter.impl.BracketsAlleleConverter
 
convert(Chromosome) - Method in class com.dnastack.bob.service.converter.impl.ChrPrefixChromosomeConverter
 
convert(String) - Method in class com.dnastack.bob.service.converter.impl.EmptyAlleleConverter
 
convert(Chromosome) - Method in class com.dnastack.bob.service.converter.impl.EmptyChromosomeConverter
 
convert(Long) - Method in class com.dnastack.bob.service.converter.impl.EmptyPositionConverter
 
convert(Reference) - Method in class com.dnastack.bob.service.converter.impl.EmptyReferenceConverter
 
convert(Reference) - Method in class com.dnastack.bob.service.converter.impl.GrchReferenceConverter
 
convert(Reference) - Method in class com.dnastack.bob.service.converter.impl.HReferenceConverter
 
convert(Long) - Method in class com.dnastack.bob.service.converter.impl.IncrementPositionConverter
 
convert(String) - Method in class com.dnastack.bob.service.converter.impl.LongNameAlleleConverter
 
convert(Chromosome) - Method in class com.dnastack.bob.service.converter.impl.LowerCaseChromosomeConverter
 
convert(Chromosome) - Method in class com.dnastack.bob.service.converter.impl.NumberChromosomeConverter
 
ConvertUtils - Class in com.dnastack.bob.service.converter.util
Utility methods for requesters.
ConvertUtils() - Constructor for class com.dnastack.bob.service.converter.util.ConvertUtils
 

E

EmptyAlleleConverter - Class in com.dnastack.bob.service.converter.impl
Allele converter preserving the original allele value.
EmptyAlleleConverter() - Constructor for class com.dnastack.bob.service.converter.impl.EmptyAlleleConverter
 
EmptyChromosomeConverter - Class in com.dnastack.bob.service.converter.impl
Converter of chromosomes to their string representations.
EmptyChromosomeConverter() - Constructor for class com.dnastack.bob.service.converter.impl.EmptyChromosomeConverter
 
EmptyPositionConverter - Class in com.dnastack.bob.service.converter.impl
Position converter preserving the original position value.
EmptyPositionConverter() - Constructor for class com.dnastack.bob.service.converter.impl.EmptyPositionConverter
 
EmptyReferenceConverter - Class in com.dnastack.bob.service.converter.impl
Converter of references to their string representations.
EmptyReferenceConverter() - Constructor for class com.dnastack.bob.service.converter.impl.EmptyReferenceConverter
 
extractIdWithoutOrganizationFromBeaconId(Beacon) - Static method in class com.dnastack.bob.service.converter.util.ConvertUtils
Returns what's left of an ID of the given beacon after removing the prefix with an organization ID and a separator.
extractPrefixFromBeaconId(Beacon, Integer) - Static method in class com.dnastack.bob.service.converter.util.ConvertUtils
Returns a prefix of an ID of the given beacon.
extractSubstringFromBeaconId(Beacon, Integer, Integer) - Static method in class com.dnastack.bob.service.converter.util.ConvertUtils
Returns a substring of an ID of the given beacon.
extractSuffixFromBeaconId(Beacon, Integer) - Static method in class com.dnastack.bob.service.converter.util.ConvertUtils
Returns a suffix of an ID of the given beacon.

G

GrchReferenceConverter - Class in com.dnastack.bob.service.converter.impl
Converter of references to their non-HG string representations ((GRCh*, NCBI*).
GrchReferenceConverter() - Constructor for class com.dnastack.bob.service.converter.impl.GrchReferenceConverter
 

H

HReferenceConverter - Class in com.dnastack.bob.service.converter.impl
Converter of references to their string representations with h instead of HG prefix.
HReferenceConverter() - Constructor for class com.dnastack.bob.service.converter.impl.HReferenceConverter
 

I

IncrementPositionConverter - Class in com.dnastack.bob.service.converter.impl
Position converter incrementing the original position by 1.
IncrementPositionConverter() - Constructor for class com.dnastack.bob.service.converter.impl.IncrementPositionConverter
 

L

LongNameAlleleConverter - Class in com.dnastack.bob.service.converter.impl
Allele converter generating domain-specific allele string with long allele names like DEL and INS.
LongNameAlleleConverter() - Constructor for class com.dnastack.bob.service.converter.impl.LongNameAlleleConverter
 
LowerCaseChromosomeConverter - Class in com.dnastack.bob.service.converter.impl
Converter of chromosomes to their lowercase string representations.
LowerCaseChromosomeConverter() - Constructor for class com.dnastack.bob.service.converter.impl.LowerCaseChromosomeConverter
 

N

NumberChromosomeConverter - Class in com.dnastack.bob.service.converter.impl
Converter of chromosomes to their string representations, X/Y chromosomes to number (23/24, respectively).
NumberChromosomeConverter() - Constructor for class com.dnastack.bob.service.converter.impl.NumberChromosomeConverter
 

R

REFERENCE_MAPPING - Static variable in class com.dnastack.bob.service.converter.util.ConvertUtils
 
replaceHgPrefix(Reference, String) - Static method in class com.dnastack.bob.service.converter.util.ConvertUtils
Replace HG prefix in reference with a custom string.
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