Uses of Interface
ubic.gemma.core.loader.genome.FastaCmd
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Packages that use FastaCmd Package Description ubic.gemma.core.loader.expression.arrayDesign ubic.gemma.core.loader.genome -
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Uses of FastaCmd in ubic.gemma.core.loader.expression.arrayDesign
Methods in ubic.gemma.core.loader.expression.arrayDesign with parameters of type FastaCmd Modifier and Type Method Description Collection<BioSequence>
ArrayDesignSequenceProcessingService. processArrayDesign(ArrayDesign arrayDesign, InputStream sequenceIdentifierFile, String[] databaseNames, String blastDbHome, Taxon taxon, boolean force, FastaCmd fc)
Collection<BioSequence>
ArrayDesignSequenceProcessingService. processArrayDesign(ArrayDesign arrayDesign, String[] databaseNames, String blastDbHome, boolean force, FastaCmd fc)
Provided primarily for testing.Collection<BioSequence>
ArrayDesignSequenceProcessingServiceImpl. processArrayDesign(ArrayDesign arrayDesign, InputStream sequenceIdentifierFile, String[] databaseNames, String blastDbHome, Taxon taxon, boolean force, FastaCmd fc)
Collection<BioSequence>
ArrayDesignSequenceProcessingServiceImpl. processArrayDesign(ArrayDesign arrayDesign, String[] databaseNames, String blastDbHome, boolean force, FastaCmd fc)
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Uses of FastaCmd in ubic.gemma.core.loader.genome
Classes in ubic.gemma.core.loader.genome that implement FastaCmd Modifier and Type Class Description class
SimpleFastaCmd
Simple implementation of methods for fetching sequences from blast-formatted databases, using blastdbcmd (aka fastacmd)
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