Class SnpEffCmdClosest

  • All Implemented Interfaces:
    CommandLine

    public class SnpEffCmdClosest
    extends SnpEff
    Command line: Find closes marker to each variant
    Author:
    pcingola
    • Constructor Detail

      • SnpEffCmdClosest

        public SnpEffCmdClosest()
      • SnpEffCmdClosest

        public SnpEffCmdClosest​(Config config)
    • Method Detail

      • parseArgs

        public void parseArgs​(java.lang.String[] args)
        Parse command line arguments
        Specified by:
        parseArgs in interface CommandLine
        Overrides:
        parseArgs in class SnpEff
      • run

        public boolean run()
        Run command
        Specified by:
        run in interface CommandLine
        Overrides:
        run in class SnpEff
      • setVerbose

        public void setVerbose​(boolean verbose)
        Overrides:
        setVerbose in class SnpEff
      • usage

        public void usage​(java.lang.String message)
        Show usage and exit
        Specified by:
        usage in interface CommandLine
        Overrides:
        usage in class SnpEff