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)