Uses of Class
org.biojava.nbio.aaproperties.profeat.IProfeatProperties.ATTRIBUTE

Packages that use IProfeatProperties.ATTRIBUTE

Package	Description
org.biojava.nbio.aaproperties.profeat	Set of classes that responsible for providing APIs access to generate some PROFEAT properties of protein sequences.

Uses of IProfeatProperties.ATTRIBUTE in org.biojava.nbio.aaproperties.profeat

Methods in org.biojava.nbio.aaproperties.profeat that return IProfeatProperties.ATTRIBUTE

Modifier and Type	Method and Description
static IProfeatProperties.ATTRIBUTE	IProfeatProperties.ATTRIBUTE.valueOf(String name) Returns the enum constant of this type with the specified name.
static IProfeatProperties.ATTRIBUTE[]	IProfeatProperties.ATTRIBUTE.values() Returns an array containing the constants of this enum type, in the order they are declared.

Methods in org.biojava.nbio.aaproperties.profeat that return types with arguments of type IProfeatProperties.ATTRIBUTE

Modifier and Type	Method and Description
static Map<IProfeatProperties.ATTRIBUTE,Map<IProfeatProperties.GROUPING,Double>>	ProfeatProperties.getComposition(ProteinSequence sequence)
Map<IProfeatProperties.ATTRIBUTE,Map<IProfeatProperties.GROUPING,Double>>	IProfeatProperties.getComposition(ProteinSequence sequence)
Map<IProfeatProperties.ATTRIBUTE,Map<IProfeatProperties.GROUPING,Double>>	ProfeatPropertiesImpl.getComposition(ProteinSequence sequence)
static Map<IProfeatProperties.ATTRIBUTE,Map<IProfeatProperties.GROUPING,Double>>	ProfeatProperties.getComposition(String sequence)
static Map<IProfeatProperties.ATTRIBUTE,Map<IProfeatProperties.GROUPING,Map<IProfeatProperties.DISTRIBUTION,Double>>>	ProfeatProperties.getDistributionPosition(ProteinSequence sequence)
Map<IProfeatProperties.ATTRIBUTE,Map<IProfeatProperties.GROUPING,Map<IProfeatProperties.DISTRIBUTION,Double>>>	IProfeatProperties.getDistributionPosition(ProteinSequence sequence)
Map<IProfeatProperties.ATTRIBUTE,Map<IProfeatProperties.GROUPING,Map<IProfeatProperties.DISTRIBUTION,Double>>>	ProfeatPropertiesImpl.getDistributionPosition(ProteinSequence sequence)
static Map<IProfeatProperties.ATTRIBUTE,Map<IProfeatProperties.GROUPING,Map<IProfeatProperties.DISTRIBUTION,Double>>>	ProfeatProperties.getDistributionPosition(String sequence)
static Map<IProfeatProperties.ATTRIBUTE,Map<IProfeatProperties.TRANSITION,Double>>	ProfeatProperties.getTransition(ProteinSequence sequence)
Map<IProfeatProperties.ATTRIBUTE,Map<IProfeatProperties.TRANSITION,Double>>	IProfeatProperties.getTransition(ProteinSequence sequence)
Map<IProfeatProperties.ATTRIBUTE,Map<IProfeatProperties.TRANSITION,Double>>	ProfeatPropertiesImpl.getTransition(ProteinSequence sequence)
static Map<IProfeatProperties.ATTRIBUTE,Map<IProfeatProperties.TRANSITION,Double>>	ProfeatProperties.getTransition(String sequence)

Methods in org.biojava.nbio.aaproperties.profeat with parameters of type IProfeatProperties.ATTRIBUTE

Modifier and Type	Method and Description
static Map<IProfeatProperties.GROUPING,Double>	ProfeatProperties.getComposition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute)
Map<IProfeatProperties.GROUPING,Double>	IProfeatProperties.getComposition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute)
Map<IProfeatProperties.GROUPING,Double>	ProfeatPropertiesImpl.getComposition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute)
static double	ProfeatProperties.getComposition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute, IProfeatProperties.GROUPING group) An adaptor method which returns the composition of the specific grouping for the given attribute.
double	IProfeatProperties.getComposition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute, IProfeatProperties.GROUPING group) Returns the composition of the specific grouping for the given attribute.
double	ProfeatPropertiesImpl.getComposition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute, IProfeatProperties.GROUPING group)
static Map<IProfeatProperties.GROUPING,Double>	ProfeatProperties.getComposition(String sequence, IProfeatProperties.ATTRIBUTE attribute)
static double	ProfeatProperties.getComposition(String sequence, IProfeatProperties.ATTRIBUTE attribute, IProfeatProperties.GROUPING group)
static Map<IProfeatProperties.GROUPING,Map<IProfeatProperties.DISTRIBUTION,Double>>	ProfeatProperties.getDistributionPosition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute)
Map<IProfeatProperties.GROUPING,Map<IProfeatProperties.DISTRIBUTION,Double>>	IProfeatProperties.getDistributionPosition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute)
Map<IProfeatProperties.GROUPING,Map<IProfeatProperties.DISTRIBUTION,Double>>	ProfeatPropertiesImpl.getDistributionPosition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute)
static Map<IProfeatProperties.DISTRIBUTION,Double>	ProfeatProperties.getDistributionPosition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute, IProfeatProperties.GROUPING group)
Map<IProfeatProperties.DISTRIBUTION,Double>	IProfeatProperties.getDistributionPosition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute, IProfeatProperties.GROUPING group)
Map<IProfeatProperties.DISTRIBUTION,Double>	ProfeatPropertiesImpl.getDistributionPosition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute, IProfeatProperties.GROUPING group)
static double	ProfeatProperties.getDistributionPosition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute, IProfeatProperties.GROUPING group, IProfeatProperties.DISTRIBUTION distribution) An adaptor method which computes and return the position with respect to the sequence where the given distribution of the grouping can be found. Example: "1111122222" For the above example, position of the GROUPING.GROUP1 && DISTRIBUTION.FIRST = 0/10 (because the first occurrence of '1' is at position 0) position of the GROUPING.GROUP1 && DISTRIBUTION.ALL = 4/10 (because all occurrences of '1' happens on and before position 4)
double	IProfeatProperties.getDistributionPosition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute, IProfeatProperties.GROUPING group, IProfeatProperties.DISTRIBUTION distribution) Computes and return the position with respect to the sequence where the given distribution of the grouping can be found. Example: "1111122222" For the above example, position of the GROUPING.GROUP1 && DISTRIBUTION.FIRST = 0/10 (because the first occurrence of '1' is at position 0) position of the GROUPING.GROUP1 && DISTRIBUTION.ALL = 4/10 (because all occurrences of '1' happens on and before position 4)
double	ProfeatPropertiesImpl.getDistributionPosition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute, IProfeatProperties.GROUPING group, IProfeatProperties.DISTRIBUTION distribution)
static Map<IProfeatProperties.GROUPING,Map<IProfeatProperties.DISTRIBUTION,Double>>	ProfeatProperties.getDistributionPosition(String sequence, IProfeatProperties.ATTRIBUTE attribute)
static Map<IProfeatProperties.DISTRIBUTION,Double>	ProfeatProperties.getDistributionPosition(String sequence, IProfeatProperties.ATTRIBUTE attribute, IProfeatProperties.GROUPING group)
static double	ProfeatProperties.getDistributionPosition(String sequence, IProfeatProperties.ATTRIBUTE attribute, IProfeatProperties.GROUPING group, IProfeatProperties.DISTRIBUTION distribution)
static Map<IProfeatProperties.TRANSITION,Double>	ProfeatProperties.getTransition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute)
Map<IProfeatProperties.TRANSITION,Double>	IProfeatProperties.getTransition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute)
Map<IProfeatProperties.TRANSITION,Double>	ProfeatPropertiesImpl.getTransition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute)
static double	ProfeatProperties.getTransition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute, IProfeatProperties.TRANSITION transition) An adaptor method which returns the number of transition between the specified groups for the given attribute with respect to the length of sequence.
double	IProfeatProperties.getTransition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute, IProfeatProperties.TRANSITION transition) Returns the number of transition between the specified groups for the given attribute with respect to the length of sequence.
double	ProfeatPropertiesImpl.getTransition(ProteinSequence sequence, IProfeatProperties.ATTRIBUTE attribute, IProfeatProperties.TRANSITION transition)
static Map<IProfeatProperties.TRANSITION,Double>	ProfeatProperties.getTransition(String sequence, IProfeatProperties.ATTRIBUTE attribute)
static double	ProfeatProperties.getTransition(String sequence, IProfeatProperties.ATTRIBUTE attribute, IProfeatProperties.TRANSITION transition)