Uses of Class
compbio.runner.msa.ClustalO

Packages that use ClustalO

compbio.runner.msa	Wrappers for native executables for multiple sequence alignment (msa)
compbio.ws.server

Uses of ClustalO in compbio.runner.msa

Methods in compbio.runner.msa that return ClustalO

ClustalO	ClustalO.setInput(java.lang.String inFile)
ClustalO	ClustalO.setOutput(java.lang.String outFile)

Methods in compbio.runner.msa that return types with arguments of type ClustalO

CommandBuilder<ClustalO>	ClustalO.getParameters(Executable.ExecProvider provider)
java.lang.Class<ClustalO>	ClustalO.getType()

Uses of ClustalO in compbio.ws.server

Methods in compbio.ws.server that return types with arguments of type ClustalO

Limit<ClustalO>	ClustalOWS.getLimit(java.lang.String presetName)
LimitsManager<ClustalO>	ClustalOWS.getLimits()
PresetManager<ClustalO>	ClustalOWS.getPresets()
RunnerConfig<ClustalO>	ClustalOWS.getRunnerOptions()

Method parameters in compbio.ws.server with type arguments of type ClustalO

java.lang.String	ClustalOWS.customAlign(java.util.List<FastaSequence> sequences, java.util.List<Option<ClustalO>> options)
java.lang.String	ClustalOWS.presetAlign(java.util.List<FastaSequence> sequences, Preset<ClustalO> preset)