Package org.snpeff.snpEffect.commandLine

Class SnpEffCmdTranslocationsReport

java.lang.Object
org.snpeff.SnpEff
org.snpeff.snpEffect.commandLine.SnpEffCmdTranslocationsReport
All Implemented Interfaces:
CommandLine
public class SnpEffCmdTranslocationsReport extends SnpEff
Create an SVG representation of a Marker

  • Field Details

  • Constructor Details

    • SnpEffCmdTranslocationsReport

      public SnpEffCmdTranslocationsReport()

  • Method Details

    • parseArgs

      public void parseArgs(String[] args)
      Parse command line arguments
      Specified by:
      parseArgs in interface CommandLine
      Overrides:
      parseArgs in class SnpEff

    • run

      public boolean run()
      Description copied from class: SnpEff
      Run according to command line options
      Specified by:
      run in interface CommandLine
      Overrides:
      run in class SnpEff

    • setOnlyOneTranscript

      public void setOnlyOneTranscript(boolean onlyOneTranscript)

    • setVcfFileName

      public void setVcfFileName(String vcfFileName)

    • usage

      public void usage(String message)
      Show 'usage;' message and exit with an error code '-1'
      Specified by:
      usage in interface CommandLine
      Overrides:
      usage in class SnpEff