broad.core.primer3.ComputeMIRScore Class Reference

Collaboration diagram for broad.core.primer3.ComputeMIRScore:

Static Public Member Functions
static double	computeMIRScore (String sequence, File mirSeedLookup, File miRNALookup) throws IOException
static double	computeMIRScore (String sequence, Map< String, Double > mirLookup, Set< String > lookup2, Set< String > rcLookup2)
static double	computeMIRScore (String sequence) throws IOException
static Set	parse (File file, boolean rc) throws IOException
static String	reverseComplement (String seq)
static String	reverse (String seq)
static String	complement (String seq)
static void	main (String[] args) throws IOException

Member Function Documentation

static String broad.core.primer3.ComputeMIRScore.complement ( String  seq )

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static double broad.core.primer3.ComputeMIRScore.computeMIRScore ( String  sequence, File  mirSeedLookup, File  miRNALookup  ) throws IOException

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static double broad.core.primer3.ComputeMIRScore.computeMIRScore ( String  sequence, Map< String, Double >  mirLookup, Set< String >  lookup2, Set< String >  rcLookup2  )

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static double broad.core.primer3.ComputeMIRScore.computeMIRScore ( String  sequence ) throws IOException

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static void broad.core.primer3.ComputeMIRScore.main ( String[]  args ) throws IOException

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static Set broad.core.primer3.ComputeMIRScore.parse ( File  file, boolean  rc  ) throws IOException

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static String broad.core.primer3.ComputeMIRScore.reverse ( String  seq )

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static String broad.core.primer3.ComputeMIRScore.reverseComplement ( String  seq )

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The documentation for this class was generated from the following file:

• java/broad/core/primer3/ComputeMIRScore.java