Package 

Class ExtractFastaFromGVCFCBSU

  • All Implemented Interfaces:
    
public class ExtractFastaFromGVCFCBSU

    Command line program to pull the sequence for each taxa where each row is an anchor Multithreads the extraction so it can run quickly TODO Create a plugin which will do this once we recode GVCF->Fasta Created by zrm22 on 5/2/17.

    • Nested Class Summary

      Nested Classes 
      Modifier and Type Class Description

    • Field Summary

      Fields 
      Modifier and Type Field Description

    • Constructor Summary

      Constructors 
      Constructor Description

    • Enum Constant Summary

      Enum Constants 
      Enum Constant Description

    • Method Summary

      Modifier and Type Method Description
      static void main(Array<String> args)
      void extractFasta(String refFileName, String intervalFileName, String gvcfListFileName) Method to setup the run by creating a file list

      • Methods inherited from class java.lang.Object

        clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait