Uses of Package
org.biojava.nbio.structure.align.ce
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Packages that use org.biojava.nbio.structure.align.ce Package Description org.biojava.nbio.structure.align Classes for the alignment of structures.org.biojava.nbio.structure.align.ce Classes related to the implementation of the CE alignment algorithm, here called jCE.org.biojava.nbio.structure.align.fatcat Classes related to the implementation of the FATCAT alignment algorithm, here called jFATCAT.org.biojava.nbio.structure.align.fatcat.calc org.biojava.nbio.structure.align.gui org.biojava.nbio.structure.align.multiple.mc org.biojava.nbio.structure.align.seq org.biojava.nbio.structure.align.util org.biojava.nbio.structure.symmetry.internal org.biojava.nbio.structure.symmetry.utils -
Classes in org.biojava.nbio.structure.align.ce used by org.biojava.nbio.structure.align Class Description ConfigStrucAligParams -
Classes in org.biojava.nbio.structure.align.ce used by org.biojava.nbio.structure.align.ce Class Description AbstractUserArgumentProcessor Base class for a new structure alignment CLI.CECalculator This is based on the original Combinatorial Extension (CE) source code from 2003 or 2004 (CE version 2.3), as has been originally developed by I.CeCPMain.CPRange Tiny wrapper for the disallowed regions of an alignment.CECPParameters Provides parameters toCeCPMainCECPParameters.DuplicationHint CeMain The main class of the Java implementation of the Combinatorial Extension Algorithm (CE), as has been originally developed by I.CeParameters Contains the parameters that can be sent to CECeParameters.ScoringStrategy CeUserArgumentProcessor process the arguments from command lineCeUserArgumentProcessor.CeStartupParams ConfigStrucAligParams MatrixListener OptimalCECPParameters Contains the parameters that can be sent to CEStartupParameters A simple bean that contains the parameters that can get set at startupUserArgumentProcessor -
Classes in org.biojava.nbio.structure.align.ce used by org.biojava.nbio.structure.align.fatcat Class Description AbstractUserArgumentProcessor Base class for a new structure alignment CLI.ConfigStrucAligParams StartupParameters A simple bean that contains the parameters that can get set at startupUserArgumentProcessor -
Classes in org.biojava.nbio.structure.align.ce used by org.biojava.nbio.structure.align.fatcat.calc Class Description ConfigStrucAligParams -
Classes in org.biojava.nbio.structure.align.ce used by org.biojava.nbio.structure.align.gui Class Description ConfigStrucAligParams -
Classes in org.biojava.nbio.structure.align.ce used by org.biojava.nbio.structure.align.multiple.mc Class Description ConfigStrucAligParams -
Classes in org.biojava.nbio.structure.align.ce used by org.biojava.nbio.structure.align.seq Class Description AbstractUserArgumentProcessor Base class for a new structure alignment CLI.ConfigStrucAligParams StartupParameters A simple bean that contains the parameters that can get set at startupUserArgumentProcessor -
Classes in org.biojava.nbio.structure.align.ce used by org.biojava.nbio.structure.align.util Class Description StartupParameters A simple bean that contains the parameters that can get set at startup -
Classes in org.biojava.nbio.structure.align.ce used by org.biojava.nbio.structure.symmetry.internal Class Description CeParameters Contains the parameters that can be sent to CEConfigStrucAligParams -
Classes in org.biojava.nbio.structure.align.ce used by org.biojava.nbio.structure.symmetry.utils Class Description CECalculator This is based on the original Combinatorial Extension (CE) source code from 2003 or 2004 (CE version 2.3), as has been originally developed by I.