jaligner-1.0.jar - JAligner - Java implementation of the Smith-Waterman algorithm

Q

JAligner is an open source Java implementation of the Smith-Waterman algorithm with Gotoh's improvement for biological local pairwise sequence alignment using the affine gap penalty model.

JAR File Size and Download Location:

File name: jaligner.jar, jaligner-1.0.jar
File size: 164489 bytes
Date modified: 05-May-2005
Download: JAligner - Java implementation of the Smith-Waterman algorithm

Manifest of the JAR:

Main-Class: jaligner.ui.AlignCommandLine
Created-At: 200505031520

✍: .fyicenter.com

A

List of Classes in the JAR:

jaligner/Alignment
jaligner/Cell
jaligner/Directions
jaligner/Markups
jaligner/Sequence
jaligner/SmithWatermanGotoh
jaligner/example/Example
jaligner/formats/CLUSTAL
jaligner/formats/FASTA
jaligner/formats/Format
jaligner/formats/FormatFactory
jaligner/formats/Pair
jaligner/matrix/MatricesCompartor
jaligner/matrix/Matrix
jaligner/matrix/MatrixLoader
jaligner/matrix/MatrixLoaderException
jaligner/test/AlignmentScoreChecker
jaligner/test/RandomSequenceGenerator
jaligner/ui/AlignCommandLine
jaligner/ui/AlignWindow
jaligner/ui/clipboard/ClipboardHandler
jaligner/ui/clipboard/ClipboardHandlerAWT
jaligner/ui/clipboard/ClipboardHandlerFactory
jaligner/ui/clipboard/ClipboardHandlerJNLP
jaligner/ui/clipboard/ClipboardListener
jaligner/ui/clipboard/ClipboardPoller
jaligner/ui/filechooser/FileChooser
jaligner/ui/filechooser/FileChooserException
jaligner/ui/filechooser/FileChooserFactory
jaligner/ui/filechooser/FileChooserJNLP
jaligner/ui/filechooser/FileChooserTrusted
jaligner/ui/filechooser/NamedInputStream
jaligner/ui/images/ToolbarIcons
jaligner/ui/logging/DocumentHandler
jaligner/ui/logging/RecordFormatter
jaligner/ui/util/PrintJobMointor
jaligner/ui/util/TextComponentUtil
jaligner/ui/util/TextComponentUtilException
jaligner/util/Commons
jaligner/util/SequenceParser
jaligner/util/SequenceParserException

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