Class FindRareAaIntervals

java.lang.Object
org.snpeff.codons.FindRareAaIntervals
public class FindRareAaIntervals extends Object
Find intervals where rare amino acids occur
Author:
pablocingolani

  • Field Details

  • Constructor Details

    • FindRareAaIntervals

      public FindRareAaIntervals(Genome genome)

  • Method Details

    • findRareAa

      public Collection<RareAminoAcid> findRareAa(String proteinFastaFile)
      Find all sites having rare amino acids
      Parameters:
      proteinFastaFile -

    • getRareThreshold

      public double getRareThreshold()

    • setRareThreshold

      public void setRareThreshold(double rareThreshold)

    • setVerbose

      public void setVerbose(boolean verbose)

    • toString

      public String toString()
      Overrides:
      toString in class Object