Package | Description |
---|---|
org.biojava.bio |
The core classes that will be used throughout the bio packages.
|
org.biojava.bio.annodb |
Databases of generic structured data (annotation) objects.
|
org.biojava.bio.program.formats |
Experimental parsers using the tagvalue framework.
|
org.biojava.bio.program.tagvalue |
Process files as streams of records, each with tags with values.
|
org.biojava.bio.program.unigene |
Objects for representing Unigene clusters.
|
Class and Description |
---|
ChangeTable
A mapping between keys and actions to turn old values into new values.
|
PropertyChanger
Interface for objects that change tag names or properties systematically.
|
Class and Description |
---|
Index2Model |
ParserListener
ParserListener is an immutable pairing of a parser and
listener. |
TagValueListener
An object that wishes to be informed of events during the parsing of a file.
|
Class and Description |
---|
ChangeTable.Changer
Callback used to produce a new value from an old one.
|
ParserListener
ParserListener is an immutable pairing of a parser and
listener. |
TagValueListener
An object that wishes to be informed of events during the parsing of a file.
|
Class and Description |
---|
BoundaryFinder |
ChangeTable
A mapping between keys and actions to turn old values into new values.
|
ChangeTable.Changer
Callback used to produce a new value from an old one.
|
ChangeTable.Splitter
Callback used to produce a list of values from a single old one.
|
Index2Model |
LineSplitParser
A parser that splits a line into tag/value at a given column number.
|
ParserListener
ParserListener is an immutable pairing of a parser and
listener. |
PropertyChanger
Interface for objects that change tag names or properties systematically.
|
SimpleTagValueWrapper
Helper class to wrap one TagValueListener inside another one.
|
StateMachine.BasicState
Implementation of a State in a state machine
|
StateMachine.State
Interface for a State within this StateMachine
|
StateMachine.Transition
class to represent a State Transition
|
StateMachine.TransitionTable
Table of Transition destination States
and their corresponding Tags.
|
TagValue
Utility class for representing tag-value pairs for TagValueParser
implementors.
|
TagValueContext
Communication interface between Parser and a TagValueListener that allows
listeners to request that a parser/listener pair be pushed onto the stack to
handle the current tag.
|
TagValueListener
An object that wishes to be informed of events during the parsing of a file.
|
TagValueParser
Tokenize single records (lines of text, objects) into a tag and a value.
|
TagValueWrapper
Interface for TagValueListeners that wrap other TagValueListeners
Implementations will tend to intercept the tags or values as they stream
through and modify them in some manner before forwarding them to the delegate
listener.
|
Class and Description |
---|
ParserListener
ParserListener is an immutable pairing of a parser and
listener. |
TagValueListener
An object that wishes to be informed of events during the parsing of a file.
|
Copyright © 2014 BioJava. All rights reserved.