Package org.snpsift

Class SnpSiftCmdPedShow

  • All Implemented Interfaces:
    org.snpeff.snpEffect.commandLine.CommandLine, org.snpeff.snpEffect.VcfAnnotator

    public class SnpSiftCmdPedShow
    extends SnpSift
    Draws a pedigree using SVG according to a VCF file
    Author:
    pablocingolani
    • Constructor Detail

      • SnpSiftCmdPedShow

        public SnpSiftCmdPedShow()
      • SnpSiftCmdPedShow

        public SnpSiftCmdPedShow​(java.lang.String[] args)
    • Method Detail

      • parseArgs

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

        public boolean run()
        Run: Main method
        Specified by:
        run in interface org.snpeff.snpEffect.commandLine.CommandLine
        Overrides:
        run in class SnpSift
        Parameters:
        tfamFile -
        vcfFileName -
        outputDir -
        chrPos -
      • usage

        public void usage​(java.lang.String msg)
        Description copied from class: SnpSift
        Show usage message
        Specified by:
        usage in interface org.snpeff.snpEffect.commandLine.CommandLine
        Overrides:
        usage in class SnpSift