Merge remote-tracking branch 'remotes/origin/develop' into feature-measure_modules
Conflicts: public/mapping/src/main/scala/nl/lumc/sasc/biopet/pipelines/mapping/MultisampleMappingTrait.scala
No related branches found
No related tags found
Showing
- docs/pipelines/gears.md 36 additions, 28 deletionsdocs/pipelines/gears.md
- public/biopet-core/src/main/resources/nl/lumc/sasc/biopet/core/report/krona.ssp 24 additions, 0 deletions.../main/resources/nl/lumc/sasc/biopet/core/report/krona.ssp
- public/biopet-core/src/main/resources/nl/lumc/sasc/biopet/core/report/main.ssp 1 addition, 1 deletion...c/main/resources/nl/lumc/sasc/biopet/core/report/main.ssp
- public/biopet-core/src/main/scala/nl/lumc/sasc/biopet/core/PipelineCommand.scala 1 addition, 1 deletion...main/scala/nl/lumc/sasc/biopet/core/PipelineCommand.scala
- public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/Flash.scala 88 additions, 0 deletions...src/main/scala/nl/lumc/sasc/biopet/extensions/Flash.scala
- public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/Ln.scala 15 additions, 35 deletions...ns/src/main/scala/nl/lumc/sasc/biopet/extensions/Ln.scala
- public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/Zcat.scala 2 additions, 2 deletions.../src/main/scala/nl/lumc/sasc/biopet/extensions/Zcat.scala
- public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/kraken/Kraken.scala 1 addition, 1 deletion.../scala/nl/lumc/sasc/biopet/extensions/kraken/Kraken.scala
- public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/kraken/KrakenReport.scala 10 additions, 7 deletions.../nl/lumc/sasc/biopet/extensions/kraken/KrakenReport.scala
- public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/qiime/AssignTaxonomy.scala 87 additions, 0 deletions...nl/lumc/sasc/biopet/extensions/qiime/AssignTaxonomy.scala
- public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/qiime/MergeOtuMaps.scala 39 additions, 0 deletions...a/nl/lumc/sasc/biopet/extensions/qiime/MergeOtuMaps.scala
- public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/qiime/MergeOtuTables.scala 36 additions, 0 deletions...nl/lumc/sasc/biopet/extensions/qiime/MergeOtuTables.scala
- public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/qiime/PickClosedReferenceOtus.scala 61 additions, 0 deletions...asc/biopet/extensions/qiime/PickClosedReferenceOtus.scala
- public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/qiime/PickOtus.scala 151 additions, 0 deletions...scala/nl/lumc/sasc/biopet/extensions/qiime/PickOtus.scala
- public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/qiime/PickRepSet.scala 45 additions, 0 deletions...ala/nl/lumc/sasc/biopet/extensions/qiime/PickRepSet.scala
- public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/qiime/SplitLibrariesFastq.scala 79 additions, 0 deletions...mc/sasc/biopet/extensions/qiime/SplitLibrariesFastq.scala
- public/biopet-extensions/src/test/scala/nl/lumc/sasc/biopet/extensions/LnTest.scala 36 additions, 0 deletions...rc/test/scala/nl/lumc/sasc/biopet/extensions/LnTest.scala
- public/biopet-public-package/src/main/scala/nl/lumc/sasc/biopet/BiopetExecutablePublic.scala 1 addition, 0 deletions...in/scala/nl/lumc/sasc/biopet/BiopetExecutablePublic.scala
- public/biopet-tools-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/tools/MergeOtuMaps.scala 40 additions, 0 deletions...a/nl/lumc/sasc/biopet/extensions/tools/MergeOtuMaps.scala
- public/biopet-tools/src/main/scala/nl/lumc/sasc/biopet/tools/MergeOtuMaps.scala 49 additions, 0 deletions...c/main/scala/nl/lumc/sasc/biopet/tools/MergeOtuMaps.scala
Loading
Please register or sign in to comment