<?xml version="1.0" encoding="UTF-8"?>
<analyses>
    <analysis>
	    <name>RealignerTargetCreator</name>
	    <input_type>bam</input_type>
	    <tag>rtc</tag>
	    <macro_file>realigner_target_creator.xml</macro_file>
    </analysis>
    <analysis>
	    <name>IndelRealigner</name>
	    <input_type>bam</input_type>
	    <tag>ir</tag>
	    <macro_file>indel_realigner.xml</macro_file>
    </analysis>
    <analysis>
	    <name>BaseRecalibrator</name>
	    <input_type>bam</input_type>
	    <tag>br</tag>
	    <macro_file>base_recalibrator.xml</macro_file>
    </analysis>
    <analysis>
	    <name>AnalyzeCovariates</name>
	    <input_type>bam</input_type>
	    <tag>ac</tag>
	    <macro_file>analyze_covariates.xml</macro_file>
    </analysis>
    <analysis>
	    <name>PrintReads</name>
	    <input_type>bam</input_type>
	    <tag>pr</tag>
	    <macro_file>print_reads.xml</macro_file>
    </analysis>
    <analysis>
	    <name>HaplotypeCaller</name>
	    <input_type>bam</input_type>
	    <tag>hc</tag>
	    <macro_file>haplotype_caller.xml</macro_file>
    </analysis>
    <analysis>
	    <name>GenotypeGVCFs</name>
	    <input_type>gvcf</input_type>
	    <tag>gg</tag>
	    <macro_file>genotype_gvcfs.xml</macro_file>
    </analysis>
    <analysis>
	    <name>CombineGVCFs</name>
	    <input_type>gvcf</input_type>
	    <tag>cg</tag>
	    <macro_file>combine_gvcfs.xml</macro_file>
    </analysis>
    <analysis>
	    <name>CombineVariants</name>
	    <input_type>vcf</input_type>
	    <tag>cv</tag>
	    <macro_file>combine_variants.xml</macro_file>
    </analysis>
</analyses>