Package org.snpeff

Class RegulationFileConsensus

java.lang.Object
org.snpeff.RegulationFileConsensus
public class RegulationFileConsensus extends Object
Create a regulation consensus from a regulation file.
Author:
pcingola

  • Constructor Details

    • RegulationFileConsensus

      public RegulationFileConsensus()

  • Method Details

    • consensus

      public void consensus(Regulation reg)
      Add to consensus

    • getRegTypes

      public Collection<String> getRegTypes()

    • getRegulationList

      public ArrayList<Regulation> getRegulationList(String regType)
      Get regulation list by type (or create a new list)

    • readFile

      public void readFile(RegulationFileIterator regulationFileIterator)
      Read a file and add all regulation intervals

    • save

      public void save()
      Save databases (one file per regType)

    • setOutputDir

      public void setOutputDir(String outputDir)

    • setVerbose

      public void setVerbose(boolean verbose)