Uses of Package
org.biojava.nbio.core.sequence.features

Packages that use org.biojava.nbio.core.sequence.features

Package	Description
org.biojava.nbio.core.sequence.features
org.biojava.nbio.core.sequence.io
org.biojava.nbio.core.sequence.loader
org.biojava.nbio.core.sequence.template
org.biojava.nbio.genome.io.fastq	FASTQ and variants sequence format I/O.

Classes in org.biojava.nbio.core.sequence.features used by org.biojava.nbio.core.sequence.features

Class and Description
AbstractFeature A feature is currently any descriptive item that can be associated with a sequence position(s) A feature has a type and a source which is currently a string to allow flexibility for the user Ideally well defined features should have a class to describe attributes of that feature
DBReferenceInfo If you have a uniprot ID then it is possible to get a collection of other id(s) that the protein is known by.
FeatureInterface Interface class to handle describing arbitrary features.
Qualifier

Classes in org.biojava.nbio.core.sequence.features used by org.biojava.nbio.core.sequence.io

Class and Description
AbstractFeature A feature is currently any descriptive item that can be associated with a sequence position(s) A feature has a type and a source which is currently a string to allow flexibility for the user Ideally well defined features should have a class to describe attributes of that feature
DBReferenceInfo If you have a uniprot ID then it is possible to get a collection of other id(s) that the protein is known by.
FeatureInterface Interface class to handle describing arbitrary features.

Classes in org.biojava.nbio.core.sequence.features used by org.biojava.nbio.core.sequence.loader

Class and Description
AbstractFeature A feature is currently any descriptive item that can be associated with a sequence position(s) A feature has a type and a source which is currently a string to allow flexibility for the user Ideally well defined features should have a class to describe attributes of that feature
DatabaseReferenceInterface If a SequenceProxyReader implements this interface then that external source has a list of cross reference id(s)
DBReferenceInfo If you have a uniprot ID then it is possible to get a collection of other id(s) that the protein is known by.
FeatureRetriever If a SequenceProxyReader implements this interface then that external source has a list features
FeaturesKeyWordInterface Models the keywords that are annotated for a protein sequence at Uniprot.

Classes in org.biojava.nbio.core.sequence.features used by org.biojava.nbio.core.sequence.template

Class and Description
DatabaseReferenceInterface If a SequenceProxyReader implements this interface then that external source has a list of cross reference id(s)
FeatureInterface Interface class to handle describing arbitrary features.
FeatureRetriever If a SequenceProxyReader implements this interface then that external source has a list features
FeaturesKeyWordInterface Models the keywords that are annotated for a protein sequence at Uniprot.

Classes in org.biojava.nbio.core.sequence.features used by org.biojava.nbio.genome.io.fastq

Class and Description
QualityFeature DNA Sequences produced by modern sequencers usually have quality informaion attached to them.
QuantityFeature It is common to have a numerical value or values associated with a feature.