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- protected/basty/pom.xml 7 additions, 0 deletionsprotected/basty/pom.xml
- protected/basty/src/main/scala/nl/lumc/sasc/biopet/pipelines/basty/Basty.scala 5 additions, 0 deletions...ain/scala/nl/lumc/sasc/biopet/pipelines/basty/Basty.scala
- protected/biopet-gatk-extensions/pom.xml 7 additions, 0 deletionsprotected/biopet-gatk-extensions/pom.xml
- protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/AnalyzeCovariates.scala 5 additions, 0 deletions.../lumc/sasc/biopet/extensions/gatk/AnalyzeCovariates.scala
- protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/ApplyRecalibration.scala 5 additions, 0 deletions...lumc/sasc/biopet/extensions/gatk/ApplyRecalibration.scala
- protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/BaseRecalibrator.scala 5 additions, 0 deletions...l/lumc/sasc/biopet/extensions/gatk/BaseRecalibrator.scala
- protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/CombineGVCFs.scala 5 additions, 0 deletions...la/nl/lumc/sasc/biopet/extensions/gatk/CombineGVCFs.scala
- protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/CombineVariants.scala 5 additions, 0 deletions...nl/lumc/sasc/biopet/extensions/gatk/CombineVariants.scala
- protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/GatkGeneral.scala 5 additions, 0 deletions...ala/nl/lumc/sasc/biopet/extensions/gatk/GatkGeneral.scala
- protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/GenotypeGVCFs.scala 5 additions, 0 deletions...a/nl/lumc/sasc/biopet/extensions/gatk/GenotypeGVCFs.scala
- protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/HaplotypeCaller.scala 5 additions, 0 deletions...nl/lumc/sasc/biopet/extensions/gatk/HaplotypeCaller.scala
- protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/IndelRealigner.scala 5 additions, 0 deletions.../nl/lumc/sasc/biopet/extensions/gatk/IndelRealigner.scala
- protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/PrintReads.scala 5 additions, 0 deletions...cala/nl/lumc/sasc/biopet/extensions/gatk/PrintReads.scala
- protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/RealignerTargetCreator.scala 5 additions, 0 deletions.../sasc/biopet/extensions/gatk/RealignerTargetCreator.scala
- protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/SelectVariants.scala 5 additions, 0 deletions.../nl/lumc/sasc/biopet/extensions/gatk/SelectVariants.scala
- protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/UnifiedGenotyper.scala 5 additions, 0 deletions...l/lumc/sasc/biopet/extensions/gatk/UnifiedGenotyper.scala
- protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/VariantAnnotator.scala 5 additions, 0 deletions...l/lumc/sasc/biopet/extensions/gatk/VariantAnnotator.scala
- protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/VariantEval.scala 5 additions, 0 deletions...ala/nl/lumc/sasc/biopet/extensions/gatk/VariantEval.scala
- protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/VariantRecalibrator.scala 5 additions, 0 deletions...umc/sasc/biopet/extensions/gatk/VariantRecalibrator.scala
- protected/biopet-gatk-pipelines/pom.xml 7 additions, 0 deletionsprotected/biopet-gatk-pipelines/pom.xml
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