X-Git-Url: https://git.arvados.org/arvados.git/blobdiff_plain/bb19e060336c4e734b3e1922c5be3c4b40ff7da8..44c95f99098fa6c6acbfa82d4b6cbc6015eb6e39:/doc/user/topics/tutorial-gatk-variantfiltration.html.textile.liquid diff --git a/doc/user/topics/tutorial-gatk-variantfiltration.html.textile.liquid b/doc/user/topics/tutorial-gatk-variantfiltration.html.textile.liquid index bf9b24272c..752488e157 100644 --- a/doc/user/topics/tutorial-gatk-variantfiltration.html.textile.liquid +++ b/doc/user/topics/tutorial-gatk-variantfiltration.html.textile.liquid @@ -3,6 +3,11 @@ layout: default navsection: userguide title: "Using GATK with Arvados" ... +{% comment %} +Copyright (C) The Arvados Authors. All rights reserved. + +SPDX-License-Identifier: CC-BY-SA-3.0 +{% endcomment %} This tutorial demonstrates how to use the Genome Analysis Toolkit (GATK) with Arvados. In this example we will install GATK and then create a VariantFiltration job to assign pass/fail scores to variants in a VCF file. @@ -87,7 +92,7 @@ Next, you need the GATK Resource Bundle[2]. This may already be available in Ar h2. Submit a GATK job -The Arvados distribution includes an example crunch script ("crunch_scripts/GATK2-VariantFiltration":https://arvados.org/projects/arvados/repository/revisions/master/entry/crunch_scripts/GATK2-VariantFiltration) that runs the GATK VariantFiltration tool with some default settings. +The Arvados distribution includes an example crunch script ("crunch_scripts/GATK2-VariantFiltration":https://dev.arvados.org/projects/arvados/repository/revisions/master/entry/crunch_scripts/GATK2-VariantFiltration) that runs the GATK VariantFiltration tool with some default settings.
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