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+ ![]() |
+ + generation + | + ++ + | +|
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+ + tool-data + | + ++ + | +|
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+ + .shed.yml + | + ++ + | +|
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+ + LICENSE + | + ++ + | +|
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+ + README + | + ++ + | +|
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+ + analyze_covariates.xml + | + ++ + | +|
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+ + base_recalibrator.xml + | + ++ + | +|
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+ + combine_gvcfs.xml + | + ++ + | +|
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+ + combine_variants.xml + | + ++ + | +|
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+ + gatk.xml + | + ++ + | +|
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+ + gatk_macros.xml + | + ++ + | +|
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+ + genotype_gvcfs.xml + | + ++ + | +|
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+ + haplotype_caller.xml + | + ++ + | +|
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+ + indel_realigner.xml + | + ++ + | +|
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+ + print_reads.xml + | + ++ + | +|
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+ + realigner_target_creator.xml + | + ++ + | +|
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+ + tool_data_table_conf.xml.sample + | + ++ + | +|
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+ + tool_dependencies.xml + | + ++ + | +
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+ + + README +
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+ Installation note: +A GATK license needs to be obtained separately from the Broad Institute (https://www.broadinstitute.org/gatk/) +to be able to use this tool. Once the license is obtained, the GATK Jar file must then be downloaded and moved +to /mnt/galaxy/tools/GATK/x.x-x on the server. Substitute the appropriate version number in the file path. +Be sure to download the correct version of the Jar file for the toolshed version installed. +