Search Java Classes and Packages
#Tools.util Classes and Interfaces - 304 results found.
| Name | Description | Type | Package | Framework |
| ArgHandlerAddToClassPath | Parse the -addToClassPath argument. | Class | com.google.gwt.user.tools.util | Google WebToolkit (GWT) |
| ArgHandlerEclipse | Creates an arg handler for eclipse launch config options. | Class | com.google.gwt.user.tools.util | Google WebToolkit (GWT) |
| ArgHandlerIgnore | Ignores any existing files and does not overwrite them. | Class | com.google.gwt.user.tools.util | Google WebToolkit (GWT) |
| ArgHandlerOverwrite | Overwrites any existing files. | Class | com.google.gwt.user.tools.util | Google WebToolkit (GWT) |
| CreatorUtilities | Utility methods used by ApplicationCreator. | Class | com.google.gwt.user.tools.util | Google WebToolkit (GWT) |
| Utility | A smattering of useful functions. | Class | com.google.gwt.util.tools | Google WebToolkit (GWT) |
| CommandLine | Various utility methods for processing Java tool command line arguments. | Class | tools.util | Code Trails |
| Utilities | Various utility functions for use in the compiler. | Class | org.codehaus.groovy.tools | Groovy |
| AbstractEventStream | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) | |
| AbstractObjectStream | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) | |
| AdaptiveFeatureGenerator | An interface for generating features for name entity identification and for updating document level contexts. | Interface | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| AdditionalContextFeatureGenerator | The AdditionalContextFeatureGenerator generates the context from the passed in additional context. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| AggregatedFeatureGenerator | The AggregatedFeatureGenerator aggregates a set of AdaptiveFeatureGenerators and calls them to generate the features. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| ArtifactProvider | Provides access to model persisted artifacts. | Interface | opennlp.tools.util.model | Natural Language Processing (OpenNLP) |
| ArtifactSerializer | Responsible to create an artifact from an InputStream. | Interface | opennlp.tools.util.model | Natural Language Processing (OpenNLP) |
| ArtifactToSerializerMapper | Interface | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) | |
| BaseModel | This model is a common based which can be used by the components Provide sub classes access to serializers already in constructor | Class | opennlp.tools.util.model | Natural Language Processing (OpenNLP) |
| BaseToolFactory | Base class for all tool factories. | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| BeamSearch | Performs k-best search over sequence. | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| BeamSearchContextGenerator | Interface for context generators used with a sequence beam search. | Interface | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| BigramNameFeatureGenerator | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) | |
| BrownBigramFeatureGenerator | Generates Brown cluster features for token bigrams. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| BrownCluster | Class to load a Brown cluster document: word\tword_class\tprob http://metaoptimize. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| BrownCluster .BrownClusterSerializer | Class | opennlp.tools.util.featuregen.BrownCluster | Natural Language Processing (OpenNLP) | |
| BrownTokenClasses | Obtain the paths listed in the pathLengths array from the Brown class. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| BrownTokenClassFeatureGenerator | Generates Brown cluster features for current token and token class. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| BrownTokenFeatureGenerator | Generates Brown cluster features for current token. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| Cache | Provides fixed size, pre-allocated, least recently used replacement cache. | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| CachedFeatureGenerator | Caches features of the aggregated AdaptiveFeatureGenerators. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| CharacterNgramFeatureGenerator | The CharacterNgramFeatureGenerator uses character ngrams to generate features about each token. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| ClassSerializer | Class | opennlp.tools.util.model | Natural Language Processing (OpenNLP) | |
| CollectionObjectStream | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) | |
| CountedSet | Set which counts the number of times a values are added to it. | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| CrossValidationPartitioner | Provides access to training and test partitions for n-fold cross validation. | Class | opennlp.tools.util.eval | Natural Language Processing (OpenNLP) |
| CrossValidationPartitioner .TrainingSampleStream | The TrainingSampleStream which iterates over all training elements. | Class | opennlp.tools.util.eval.CrossValidationPartitioner | Natural Language Processing (OpenNLP) |
| CustomFeatureGenerator | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) | |
| DictionaryFeatureGenerator | The DictionaryFeatureGenerator uses the DictionaryNameFinder to generated features for detected names based on the InSpanGenerator. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| DocumentBeginFeatureGenerator | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) | |
| EvaluationMonitor | Interface | opennlp.tools.util.eval | Natural Language Processing (OpenNLP) | |
| Evaluator | The Evaluator is an abstract base class for evaluators. | Class | opennlp.tools.util.eval | Natural Language Processing (OpenNLP) |
| EventTraceStream | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) | |
| ExtensionLoader | The ExtensionLoader is responsible to load extensions to the OpenNLP library. | Class | opennlp.tools.util.ext | Natural Language Processing (OpenNLP) |
| ExtensionNotLoadedException | Exception indicates that an OpenNLP extension could not be loaded. | Class | opennlp.tools.util.ext | Natural Language Processing (OpenNLP) |
| ExtensionServiceKeys | Class | opennlp.tools.util.ext | Natural Language Processing (OpenNLP) | |
| FastTokenClassFeatureGenerator | Generates features for different for the class of the token. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| FeatureGeneratorAdapter | This class provides empty implementations of some of the optional methods in AdditionalContextFeatureGenerator to make implementing feature generators | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| FeatureGeneratorFactory | The FeatureGeneratorFactory interface is factory for AdaptiveFeatureGenerators. | Interface | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| FeatureGeneratorFactorySerializer | Class | opennlp.tools.util.model | Natural Language Processing (OpenNLP) | |
| FeatureGeneratorResourceProvider | The FeatureGeneratorResourceProvider provides access to the resources provided in the model. | Interface | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| FeatureGeneratorUtil | This class provide common utilities for feature generation. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| FilterObjectStream | Abstract base class for filtering ObjectStreams. | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| FMeasure | The FMeasure is an utility class for evaluators which measure precision, recall and the resulting f-measure. | Class | opennlp.tools.util.eval | Natural Language Processing (OpenNLP) |
| GeneratorFactory | Creates a set of feature generators based on a provided XML descriptor. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| GenericModelSerializer | Class | opennlp.tools.util.model | Natural Language Processing (OpenNLP) | |
| HashList | Class which creates mapping between keys and a list of values. | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| Heap | Interface for interacting with a Heap data structure. | Interface | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| InputStreamFactory | Allows repeated reads through a stream for certain types of model building. | Interface | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| InSpanGenerator | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) | |
| InvalidFormatException | This exception indicates that a resource violates the expected data format. | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| ListHeap | This class implements the heap interface using a List as the underlying data structure. | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| MarkableFileInputStreamFactory | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) | |
| Mean | Calculates the arithmetic mean of values added with the add(double) method. | Class | opennlp.tools.util.eval | Natural Language Processing (OpenNLP) |
| ModelType | Class | opennlp.tools.util.model | Natural Language Processing (OpenNLP) | |
| ModelUtil | Utility class for handling of MaxentModels. | Class | opennlp.tools.util.model | Natural Language Processing (OpenNLP) |
| ObjectStream | Reads Objects from a stream. | Interface | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| ObjectStreamUtils | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) | |
| OSGiExtensionLoader | OSGi bundle activator which can use an OSGi service as an OpenNLP extension. | Class | opennlp.tools.util.ext | Natural Language Processing (OpenNLP) |
| OutcomePriorFeatureGenerator | The definition feature maps the underlying distribution of outcomes. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| ParagraphStream | Stream filter which merges text lines into paragraphs. | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| PlainTextByLineStream | Reads a plain text file and return each line as a String object. | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| PrefixFeatureGenerator | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) | |
| PreviousMapFeatureGenerator | This FeatureGeneratorAdapter generates features indicating the outcome associated with a previously occuring word. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| PreviousTwoMapFeatureGenerator | This FeatureGeneratorAdapter generates features indicating the outcome associated with two previously occuring words. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| ResetableIterator | This interface makes an Iterator resetable. | Interface | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| ReverseListIterator | An iterator for a list which returns values in the opposite order as the typical list iterator. | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| SentenceFeatureGenerator | This feature generator creates sentence begin and end features. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| Sequence | Represents a weighted sequence of outcomes. | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| SequenceCodec | Interface | opennlp.tools.util | Natural Language Processing (OpenNLP) | |
| SequenceValidator | Interface | opennlp.tools.util | Natural Language Processing (OpenNLP) | |
| SerializableArtifact | Interface | opennlp.tools.util.model | Natural Language Processing (OpenNLP) | |
| Span | Class for storing start and end integer offsets. | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| StringList | The StringList is an immutable list of Strings. | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| StringPattern | Recognizes predefined patterns in strings. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| StringUtil | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) | |
| SuffixFeatureGenerator | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) | |
| TokenClassFeatureGenerator | Generates features for different for the class of the token. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| TokenFeatureGenerator | Generates a feature which contains the token itself. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| TokenPatternFeatureGenerator | Partitions tokens into sub-tokens based on character classes and generates class features for each of the sub-tokens and combinations of those sub-tokens. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| TrainingParameters | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) | |
| TreeHeap | An implementation of the Heap interface based on SortedSet. | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| TrigramNameFeatureGenerator | Adds trigram features based on tokens and token classes. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| UncloseableInputStream | An InputStream which cannot be closed. | Class | opennlp.tools.util.model | Natural Language Processing (OpenNLP) |
| Version | The Version class represents the OpenNlp Tools library version. | Class | opennlp.tools.util | Natural Language Processing (OpenNLP) |
| WindowFeatureGenerator | Generates previous and next features for a given AdaptiveFeatureGenerator. | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) |
| WordClusterDictionary | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) | |
| WordClusterDictionary .WordClusterDictionarySerializer | Class | opennlp.tools.util.featuregen.WordClusterDictionary | Natural Language Processing (OpenNLP) | |
| WordClusterFeatureGenerator | Class | opennlp.tools.util.featuregen | Natural Language Processing (OpenNLP) | |
| AnnotationUtil | Class | org.apache.cxf.tools.util | Apache CXF | |
| BuiltInTypesJavaMappingUtil | Class | org.apache.cxf.tools.util | Apache CXF | |
| ClassCollector | Class | org.apache.cxf.tools.util | Apache CXF | |
| FileWriterUtil | Class | org.apache.cxf.tools.util | Apache CXF | |
| JAXBUtils | Class | org.apache.cxf.tools.util | Apache CXF | |
| NameUtil | Class | org.apache.cxf.tools.util | Apache CXF | |
| OutputStreamCreator | Class | org.apache.cxf.tools.util | Apache CXF | |
| PropertyUtil | Class | org.apache.cxf.tools.util | Apache CXF | |
| ToolsStaxUtils | Class | org.apache.cxf.tools.util | Apache CXF | |
| URLFactory | Class | org.apache.cxf.tools.util | Apache CXF | |
| Utils | Class | org.controlsfx.tools | ControlsFX | |
| AbstractInternationalString | A string that has been internationalized into several locales. | Class | org.geotools.util | GeoTools |
| BooleanConverterFactory | ConverterFactory for handling boolean conversions. | Class | org.geotools.util | GeoTools |
| CanonicalSet | A canonical set of objects, used to optimize memory use. | Class | org.geotools.util | GeoTools |
| CharsetConverterFactory | Converter for going from a String to a Charset and vice versa. | Class | org.geotools.util | GeoTools |
| CheckedArrayList | A checked and synchronized List. | Class | org.geotools.util | GeoTools |
| CheckedCollection | Collection that ensures that all elements are assignable to a given base type. | Interface | org.geotools.util | GeoTools |
| CheckedHashMap | A checked and synchronized Map. | Class | org.geotools.util | GeoTools |
| CheckedHashSet | A checked and synchronized Set. | Class | org.geotools.util | GeoTools |
| CollectionConverterFactory | Converts among arrays and different collection classes. | Class | org.geotools.util | GeoTools |
| ColorConverterFactory | ConverterFactory for handling color conversions. | Class | org.geotools.util | GeoTools |
| CommonsConverterFactory | Convert String to common scalar values. | Class | org.geotools.util | GeoTools |
| CommonsLoggerFactory | A factory for loggers that redirect all Java logging events to the Apache's Commons-logging framework. | Class | org.geotools.util.logging | GeoTools |
| Comparators | General purpose comparators. | Class | org.geotools.util | GeoTools |
| ComplexAttributeConverterFactory | This converter retrieves the values out of attributes. | Class | org.geotools.util | GeoTools |
| Converter | Converts values of one type into another. | Interface | org.geotools.util | GeoTools |
| ConverterFactory | Factory used to create instances of Converter. | Interface | org.geotools.util | GeoTools |
| Converters | Convenience class for converting an object from one type to an object of another. | Class | org.geotools.util | GeoTools |
| DateRange | Class | org.geotools.util | GeoTools | |
| DefaultProgressListener | Default Implementation of ProgressListener that does retain exceptions. | Class | org.geotools.util | GeoTools |
| DefaultProgressListener .Warning | Collector class for warnings. | Class | org.geotools.util.DefaultProgressListener | GeoTools |
| DelegateProgressListener | Class | org.geotools.util | GeoTools | |
| DerivedMap | A map whose keys are derived from an other map. | Class | org.geotools.util | GeoTools |
| DerivedSet | A set whose values are derived from an other set. | Class | org.geotools.util | GeoTools |
| DisjointSet | A set which is disjoint from others DisjointSets. | Class | org.geotools.util | GeoTools |
| EnumerationConverterFactory | Converts between enumerations and stringsAuthor:Andrea Aime - OpenGeo | Class | org.geotools.util | GeoTools |
| FrequencySortedSet | A set with elements ordered by the amount of time they were added. | Class | org.geotools.util | GeoTools |
| GenericName | Base class for generic scoped and local name structure for type and attribute | Class | org.geotools.util | GeoTools |
| GeometryConverterFactory | Converter factory performing converstions among geometric types. | Class | org.geotools.util | GeoTools |
| GeometryTypeConverterFactory | Converter factory performing conversions among JTS geometries of different types. | Class | org.geotools.util | GeoTools |
| GrowableInternationalString | An implementation of international string using a map of strings for different locales. | Class | org.geotools.util | GeoTools |
| IntegerList | A list of unsigned integer values. | Class | org.geotools.util | GeoTools |
| InterpolationProperties | Stores properties and provides methods to support interpolation of properties in a file. | Class | org.geotools.util | GeoTools |
| KeySortedList | List of elements sorted by a key which is not the element itself. | Class | org.geotools.util | GeoTools |
| KVP | A linked HashMap set up for easy construction. | Class | org.geotools.util | GeoTools |
| ListenerList | This class is used to maintain a list of listeners, and is used in the implementations of several classes within JFace | Class | org.geotools.util | GeoTools |
| LocalName | Identifier within a name space for a local object. | Class | org.geotools.util | GeoTools |
| Log4JLoggerFactory | A factory for loggers that redirect all Java logging events to the Apache'sSince:2. | Class | org.geotools.util.logging | GeoTools |
| LoggedFormat | Wraps a Format object in order to either parse fully a string, or log a warning. | Class | org.geotools.util.logging | GeoTools |
| LoggerAdapter | An adapter that redirect all Java logging events to an other logging framework. | Class | org.geotools.util.logging | GeoTools |
| LoggerFactory | A factory for Java Logger wrapping an other logging framework. | Class | org.geotools.util.logging | GeoTools |
| Logging | A set of utilities method for configuring loggings in GeoTools. | Class | org.geotools.util.logging | GeoTools |
| LRULinkedHashMap | A Map with a fixed maximum size which removes the least recently used (LRU) entry if an entry is added when full. | Class | org.geotools.util | GeoTools |
| MapEntry | A default implementation of Map. | Class | org.geotools.util | GeoTools |
| MeasureConverterFactory | ConverterFactory which converts between the Measure and String. | Class | org.geotools.util | GeoTools |
| MeasurementRange | A range of numbers associated with a unit of measurement. | Class | org.geotools.util | GeoTools |
| MemberNameImpl | The name to identify a member of a record. | Class | org.geotools.util | GeoTools |
| MonolineFormatter | A formatter writting log messages on a single line. | Class | org.geotools.util.logging | GeoTools |
| NameConverterFactory | ConverterFactory for handling Name conversions. | Class | org.geotools.util | GeoTools |
| NameFactory | A factory for GenericName objects. | Class | org.geotools.util | GeoTools |
| NullProgressListener | A default progress listener implementation suitable for This implementation supports cancelation and getting/setting the description. | Class | org.geotools.util | GeoTools |
| NumberRange | A range of numbers. | Class | org.geotools.util | GeoTools |
| NumericConverterFactory | ConverterFactory which converts between the "standard" numeric types. | Class | org.geotools.util | GeoTools |
| ObjectCache | A cache for arbitrary objects. | Interface | org.geotools.util | GeoTools |
| ObjectCaches | This is facade around several constructs used by GeoTools for internal caching. | Class | org.geotools.util | GeoTools |
| ProgressListener | Monitor the progress of some lengthly operation. | Interface | org.geotools.util | GeoTools |
| QNameConverterFactory | ConverterFactory for handling qname conversions. | Class | org.geotools.util | GeoTools |
| Range | A range between a minimum and maximum comparable. | Class | org.geotools.util | GeoTools |
| RangeSet | An ordered set of ranges. | Class | org.geotools.util | GeoTools |
| Ranks | Sorts elements in an array while remembering their ranks. | Class | org.geotools.util | GeoTools |
| RecordTypeImpl | The type definition of a record. | Class | org.geotools.util | GeoTools |
| ResourceInternationalString | An international string backed by a resource bundle. | Class | org.geotools.util | GeoTools |
| ScopedName | Fully qualified identifier for an object. | Class | org.geotools.util | GeoTools |
| SimpleInternationalString | A simple international string consisting of a single string for all locales. | Class | org.geotools.util | GeoTools |
| SoftValueHashMap | A hash map implementation that uses soft references, leaving memory when an entry is not used anymore and memory is low. | Class | org.geotools.util | GeoTools |
| SoftValueHashMap .ValueCleaner | A delegate that can be used to perform clean up operation, such as resource closing, before the values cached in soft part of the cache gets disposed of | Interface | org.geotools.util.SoftValueHashMap | GeoTools |
| SubProgressListener | A sub progress monitor, used to delegate a portion of work to a separate process. | Class | org.geotools.util | GeoTools |
| TemporalConverterFactory | Converter factory which created converting between the various temporal types. | Class | org.geotools.util | GeoTools |
| UnsupportedImplementationException | Throws when an operation can't use arbitrary implementation of an interface, and a given instance doesn't meet the requirement. | Class | org.geotools.util | GeoTools |
| URConverterFactory | Converter factory which can convert between URL,URI, and String. | Class | org.geotools.util | GeoTools |
| Utilities | Miscellaneous methods, including cnvenience methods for equals and hashCode implementations. | Class | org.geotools.util | GeoTools |
| UuidConverterFactory | ConverterFactory for handling uuid (uniqueidentifier) conversions. | Class | org.geotools.util | GeoTools |
| Version | Holds a version number. | Class | org.geotools.util | GeoTools |
| WeakCollectionCleaner | A thread invoking Reference. | Class | org.geotools.util | GeoTools |
| WeakHashSet | A set of objects hold by weak references. | Class | org.geotools.util | GeoTools |
| WeakValueHashMap | A hashtable-based Map implementation with weak values. | Class | org.geotools.util | GeoTools |
| XmlXpathUtilites | Ulities class for xpath handling on a jdom document objectAuthor:Russell Petty (GeoScience Victoria) | Class | org.geotools.util | GeoTools |
| AbstractAsyncWriter | Abstract class that is designed to be extended and specialized to provide an asynchronous wrapper around any kind of Writer class that takes an object and writes it out somehow. | Class | htsjdk.samtools.util | HtsJDK |
| AbstractIterator | Base class of implementing iterators. | Class | htsjdk.samtools.util | HtsJDK |
| AbstractProgressLogger | Abstract implementation of a Little progress logging class to facilitate consistent output of useful information when progressing through a stream of SAM records. | Class | htsjdk.samtools.util | HtsJDK |
| AsciiWriter | Fast (I hope) buffered Writer that converts char to byte merely by casting, rather than charset conversion. | Class | htsjdk.samtools.util | HtsJDK |
| BinaryCodec | Encapsulates file representation of various primitive data types. | Class | htsjdk.samtools.util | HtsJDK |
| BlockCompressedFilePointerUtil | Static for manipulating virtual file pointers in BGZF files. | Class | htsjdk.samtools.util | HtsJDK |
| BlockCompressedInputStream | Class | htsjdk.samtools.util | HtsJDK | |
| BlockCompressedInputStream .FileTermination | Returns the enum constant of this type with the specified name. | Class | htsjdk.samtools.util | HtsJDK |
| BlockCompressedOutputStream | Writer for a file that is a series of gzip blocks (BGZF format). | Class | htsjdk.samtools.util | HtsJDK |
| BlockCompressedStreamConstants | Class | htsjdk.samtools.util | HtsJDK | |
| BlockGunzipper | Alternative to GZIPInputStream, for decompressing GZIP blocks that are already loaded into a byte[]. | Class | htsjdk.samtools.util | HtsJDK |
| BufferedLineReader | than AsciiLineReaderImpl. | Class | htsjdk.samtools.util | HtsJDK |
| CigarUtil | Class | htsjdk.samtools.util | HtsJDK | |
| CloseableIterator | This interface is used by iterators that use releasable resources during iteration. | Interface | htsjdk.samtools.util | HtsJDK |
| CloserUtil | Utility to close things that implement Closeable WARNING: This should only be used for Closeable things open for read, because it ignores exceptions, and | Class | htsjdk.samtools.util | HtsJDK |
| CodeUtil | Miscellaneous util methods that don't fit anywhere else. | Class | htsjdk.samtools.util | HtsJDK |
| CollectionUtil | Small utility methods for dealing with collection classes. | Class | htsjdk.samtools.util | HtsJDK |
| CollectionUtil .DefaultingMap | A defaulting map, which returns a default value when a value that does not exist in the map is looked up. | Class | htsjdk.samtools.util | HtsJDK |
| CollectionUtil .DefaultingMap .Factory | Interface | htsjdk.samtools.util | HtsJDK | |
| CollectionUtil .MultiMap | Simple multi-map for convenience of storing collections in map values. | Class | htsjdk.samtools.util | HtsJDK |
| CollectionUtil .Partitioner | Class | htsjdk.samtools.util | HtsJDK | |
| ComparableTuple | A simple extension of the Tuple class that, for comparable Types, allows comparing Tuples of non-null elements. | Class | htsjdk.samtools.util | HtsJDK |
| CoordMath | Class | htsjdk.samtools.util | HtsJDK | |
| CoordSpanInputSteam | An input stream that wraps a SeekableStream to produce only bytes specified within coordinates. | Class | htsjdk.samtools.util | HtsJDK |
| DateParser | NOTE: This code has been taken from w3. | Class | htsjdk.samtools.util | HtsJDK |
| DateParser .InvalidDateException | Class | htsjdk.samtools.util | HtsJDK | |
| DeflaterFactory | Create zlib-based Deflater if JNI library and other require libraries are available, otherwise create standard Java 7 has its own Deflater implementation (libzip. | Class | htsjdk.samtools.util.zip | HtsJDK |
| DelegatingIterator | Simple iterator class that delegates all method calls to an underlying iterator. | Class | htsjdk.samtools.util | HtsJDK |
| DiskBackedQueue | A single-ended FIFO queue. | Class | htsjdk.samtools.util | HtsJDK |
| FastLineReader | Line-oriented InputStream reader that uses one buffer for disk buffering and line-termination-finding, in order to improve performance. | Class | htsjdk.samtools.util | HtsJDK |
| FastqQualityFormat | enum FastqQualityFormatEnumeration for FastQ quality score formats formats. | Class | htsjdk.samtools.util | HtsJDK |
| FileAppendStreamLRUCache | LRU cache of OutputStreams to handle situation in which it is necessary to have more FileOutputStreams than resource limits will allow. | Class | htsjdk.samtools.util | HtsJDK |
| FormatUtil | Simple class used to format object values into a standard format for printing. | Class | htsjdk.samtools.util | HtsJDK |
| FTPClient | Class | htsjdk.samtools.util.ftp | HtsJDK | |
| FTPReply | Class | htsjdk.samtools.util.ftp | HtsJDK | |
| FTPStream | A "non-seekable" ftp stream. | Class | htsjdk.samtools.util.ftp | HtsJDK |
| FTPUtils | Class | htsjdk.samtools.util.ftp | HtsJDK | |
| Histogram | Class for computing and accessing histogram type data. | Class | htsjdk.samtools.util | HtsJDK |
| HttpUtils | Class | htsjdk.samtools.util | HtsJDK | |
| IntelDeflater | This is a copy of java. | Class | htsjdk.samtools.util.zip | HtsJDK |
| Interval | Represents a simple interval on a sequence. | Class | htsjdk.samtools.util | HtsJDK |
| IntervalList | Represents a list of intervals against a reference sequence that can be written to and read from a file. | Class | htsjdk.samtools.util | HtsJDK |
| IntervalListReferenceSequenceMask | Serve up loci of interest based on an interval list. | Class | htsjdk.samtools.util | HtsJDK |
| IntervalTree | A Red-Black tree with intervals for keys. | Class | htsjdk.samtools.util | HtsJDK |
| IntervalTree .Node | Class | htsjdk.samtools.util | HtsJDK | |
| IntervalTree .ValuesIterator | Class | htsjdk.samtools.util | HtsJDK | |
| IntervalTreeMap | Utility class that implements an interval map. | Class | htsjdk.samtools.util | HtsJDK |
| IntervalUtil | Class | htsjdk.samtools.util | HtsJDK | |
| IOUtil | Miscellaneous stateless static IO-oriented methods. | Class | htsjdk.samtools.util | HtsJDK |
| Iso8601Date | Use this type rather than java. | Class | htsjdk.samtools.util | HtsJDK |
| IterableAdapter | Provides an adapter to wrap an Iterator with an Iterable, allowing it to be run through a foreach loop. | Class | htsjdk.samtools.util | HtsJDK |
| IterableOnceIterator | Abstract implementation of an iterator that also implements Iterable (to return itself) so that it can be used if for() loops. | Class | htsjdk.samtools.util | HtsJDK |
| Iterables | Class | htsjdk.samtools.util | HtsJDK | |
| Lazy | Simple utility for building an on-demand (lazy) object-initializer. | Class | htsjdk.samtools.util | HtsJDK |
| Lazy .LazyInitializer | Describes how to build the instance of the lazy object. | Interface | htsjdk.samtools.util | HtsJDK |
| LineReader | Interface allows for implementations that read lines from a String, an ASCII file, or somewhere else. | Interface | htsjdk.samtools.util | HtsJDK |
| ListMap | A Map class that holds a list of entries under each key instead of a single entry, and provides utility methods for adding an entry under a key. | Class | htsjdk.samtools.util | HtsJDK |
| Locatable | Any class that has a single logical mapping onto the genome should implement Locatable positions should be reported as 1-based and closed at both ends | Interface | htsjdk.samtools.util | HtsJDK |
| LocationAware | Describes API for getting current position in a stream, writer, or underlying file. | Interface | htsjdk.samtools.util | HtsJDK |
| Locus | Location info about a locus. | Interface | htsjdk.samtools.util | HtsJDK |
| LocusComparator | compares first by sequence index then by positionAuthor:Doug Voet (dvoet at broadinstitute dot org)See Also:Serialized Form | Class | htsjdk.samtools.util | HtsJDK |
| LocusImpl | Simple implementation of Locus interface for ease of passing as an arg and comparing with other Locus implementations. | Class | htsjdk.samtools.util | HtsJDK |
| Log | A wafer thin wrapper around System. | Class | htsjdk.samtools.util | HtsJDK |
| Log .LogLevel | Returns the enum constant of this type with the specified name. | Class | htsjdk.samtools.util | HtsJDK |
| Md5CalculatingInputStream | Class to generate an MD5 string for a file as it is being readAuthor:ktibbett@broadinstitue. | Class | htsjdk.samtools.util | HtsJDK |
| Md5CalculatingOutputStream | Class to generate an MD5 string for a file as it is being readAuthor:ktibbett@broadinstitue. | Class | htsjdk.samtools.util | HtsJDK |
| MergingIterator | An iterator over Iterators that return Ts. | Class | htsjdk.samtools.util | HtsJDK |
| Murmur3 | Provides an implementation of the Murmur3_32 hash algorithm that has desirable properties in terms of randomness and uniformity of the distribution of output values that make it a useful hashing algorithm for downsampling. | Class | htsjdk.samtools.util | HtsJDK |
| Objects | Subset of JDK7's Objects for non-JDK7 support. | Class | htsjdk.samtools.util | HtsJDK |
| OverlapDetector | Utility class to efficiently do in memory overlap detection between a large set of mapping like objects, and one or more candidate mappings. | Class | htsjdk.samtools.util | HtsJDK |
| PeekableIterator | Class | htsjdk.samtools.util | HtsJDK | |
| PeekIterator | Wrapper around an iterator that enables non-destructive peeking at the next element that would be returned by next() | Class | htsjdk.samtools.util | HtsJDK |
| ProcessExecutor | Utility class that will execute sub processes via Runtime. | Class | htsjdk.samtools.util | HtsJDK |
| ProcessExecutor .ExitStatusAndOutput | Class | htsjdk.samtools.util | HtsJDK | |
| ProgressLogger | Little progress logging class to facilitate consistent output of useful information when progressing through a stream of SAM records. | Class | htsjdk.samtools.util | HtsJDK |
| ProgressLoggerInterface | An interface defining the record() methods of the Picard-public ProgressLogger implementation. | Interface | htsjdk.samtools.util | HtsJDK |
| QualityEncodingDetector | Utility for determining the type of quality encoding/format (see FastqQualityFormat) used in a SAM/BAM or Fastq. | Class | htsjdk.samtools.util | HtsJDK |
| QualityEncodingDetector .FileContext | Returns the enum constant of this type with the specified name. | Class | htsjdk.samtools.util | HtsJDK |
| QualityUtil | Utility class for working with quality scores and error probabilities. | Class | htsjdk.samtools.util | HtsJDK |
| ReferenceSequenceMask | Interface for specifying loci of interest for genotype calling and other operations. | Interface | htsjdk.samtools.util | HtsJDK |
| RelativeIso8601Date | Like Iso8601Date, but also comes in a "lazy now" flavor. | Class | htsjdk.samtools.util | HtsJDK |
| ResourceLimitedMap | LRU collection class for managing objects that place some resource burden such that not too many of them can existing in the VM at one time, but they can be reconstructed ias necessary. | Class | htsjdk.samtools.util | HtsJDK |
| ResourceLimitedMapFunctor | c. | Interface | htsjdk.samtools.util | HtsJDK |
| RuntimeEOFException | Thrown by various codecs to indicate EOF without having to clutter the API with throws clausesSee Also:Serialized Form | Class | htsjdk.samtools.util | HtsJDK |
| RuntimeIOException | Thrown by various IO classes to indicate IOException without having to clutter the API with throws clausesSee Also:Serialized Form | Class | htsjdk.samtools.util | HtsJDK |
| RuntimeScriptException | Thrown by classes handling script engines like the javascript-based filters for SAM/VCFSee Also:Serialized Form | Class | htsjdk.samtools.util | HtsJDK |
| SamLocusIterator | Iterator that traverses a SAM File, accumulating information on a per-locus basis. | Class | htsjdk.samtools.util | HtsJDK |
| SamLocusIterator .LocusInfo | The unit of iteration. | Class | htsjdk.samtools.util | HtsJDK |
| SamLocusIterator .RecordAndOffset | Holds a SAMRecord plus the zero-based offset into that SAMRecord's bases and quality scores that corresponds to the base and quality at the genomic position described the containing LocusInfo. | Class | htsjdk.samtools.util | HtsJDK |
| SamRecordIntervalIteratorFactory | Create an iterator over a SAMFileReader that only returns reads that overlap one of the intervals in an interval list. | Class | htsjdk.samtools.util | HtsJDK |
| SamRecordTrackingBuffer | This class stores SAMRecords for return. | Class | htsjdk.samtools.util | HtsJDK |
| SamRecordWithOrdinal | A little class to store the unique index associated with this record. | Class | htsjdk.samtools.util | HtsJDK |
| SequenceUtil | Class | htsjdk.samtools.util | HtsJDK | |
| SequenceUtil .SequenceListsDifferException | Class | htsjdk.samtools.util | HtsJDK | |
| SnappyLoader | If Snappy is available, obtain single-arg ctors for SnappyInputStream and SnappyOutputStream. | Class | htsjdk.samtools.util | HtsJDK |
| SolexaQualityConverter | Optimized method for converting Solexa ASCII qualities into Phred scores. | Class | htsjdk.samtools.util | HtsJDK |
| SortingCollection | Collection to which many records can be added. | Class | htsjdk.samtools.util | HtsJDK |
| SortingCollection .Codec | Client must implement this class, which defines the way in which records are written to andMust return a cloned copy of the codec that can be used independently of | Interface | htsjdk.samtools.util | HtsJDK |
| SortingLongCollection | Accumulate a list of longs that can then be sorted in natural order and iterated over. | Class | htsjdk.samtools.util | HtsJDK |
| StopWatch | Utility to help in performance testing. | Class | htsjdk.samtools.util | HtsJDK |
| StringLineReader | is necessary because the String is in unicode. | Class | htsjdk.samtools.util | HtsJDK |
| StringUtil | Grab-bag of stateless String-oriented utilities. | Class | htsjdk.samtools.util | HtsJDK |
| TempStreamFactory | Factory class for wrapping input and output streams for temporary files. | Class | htsjdk.samtools.util | HtsJDK |
| TestUtil | Class | htsjdk.samtools.util | HtsJDK | |
| TrimmingUtil | Utility code for performing quality trimming. | Class | htsjdk.samtools.util | HtsJDK |
| Tuple | A simple tuple class. | Class | htsjdk.samtools.util | HtsJDK |
| WholeGenomeReferenceSequenceMask | Class | htsjdk.samtools.util | HtsJDK | |
| AndFilter | This filter will "accept" any object that is accept by both of the specified wrapped filters. | Class | org.eclipse.persistence.jpa.jpql.tools.utility.filter | EclipseLink |
| CloneIterable | Pull together remover state and behavior for subclasses. | Class | org.eclipse.persistence.jpa.jpql.tools.utility.iterable | EclipseLink |
| CloneIterator | A CloneIterator iterates over a copy of a collection, allowing for concurrent access to the original collection. | Class | org.eclipse.persistence.jpa.jpql.tools.utility.iterator | EclipseLink |
| CloneIterator .Remover | Used by CloneIterator to remove elements from the original collection; since the iterator | Interface | org.eclipse.persistence.jpa.jpql.tools.utility.iterator | EclipseLink |
| CloneIterator .Remover .ReadOnly | Class | org.eclipse.persistence.jpa.jpql.tools.utility.iterator | EclipseLink | |
| CompoundFilter | This filter provides a simple framework for combining the behavior of a pair of filters. | Class | org.eclipse.persistence.jpa.jpql.tools.utility.filter | EclipseLink |
| EmptyIterable | An EmptyIterable is just that. | Class | org.eclipse.persistence.jpa.jpql.tools.utility.iterable | EclipseLink |
| EmptyIterator | A null instance of an Iterator. | Class | org.eclipse.persistence.jpa.jpql.tools.utility.iterator | EclipseLink |
| SingleElementListIterable | A SingleElementListIterable returns a ListIterator that holds a single element | Class | org.eclipse.persistence.jpa.jpql.tools.utility.iterable | EclipseLink |
| SingleElementListIterator | A SingleElementListIterator holds a single element and returns it with the first call to next(), at which point it will return false to any subsequent call | Class | org.eclipse.persistence.jpa.jpql.tools.utility.iterator | EclipseLink |
| SnapshotCloneIterable | A SnapshotCloneIterable returns an iterator on a "snapshot" of a collection, allowing for concurrent access to the original collection. | Class | org.eclipse.persistence.jpa.jpql.tools.utility.iterable | EclipseLink |
| SnapshotCloneIterable .LocalCloneIterator | Class | org.eclipse.persistence.jpa.jpql.tools.utility.iterable | EclipseLink | |
| XmlEscapeCharacterConverter | This converter handles references when dealing with text or markup in an XML document. | Class | org.eclipse.persistence.jpa.jpql.tools.utility | EclipseLink |