Class SnpEffCmdBuildNextProt

  • All Implemented Interfaces:
    CommandLine

    public class SnpEffCmdBuildNextProt
    extends SnpEff
    Parse NetxProt XML file and build a database http://www.nextprot.org/
    Author:
    pablocingolani
    • Constructor Detail

      • SnpEffCmdBuildNextProt

        public SnpEffCmdBuildNextProt()
    • Method Detail

      • parseArgs

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

        public boolean run()
        Run main analysis
        Specified by:
        run in interface CommandLine
        Overrides:
        run in class SnpEff
      • usage

        public void usage​(java.lang.String message)
        Description copied from class: SnpEff
        Show 'usage' message and exit with an error code '-1'
        Specified by:
        usage in interface CommandLine
        Overrides:
        usage in class SnpEff