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.dockstore.yml
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version: 1.2
workflows:
- name: Optimus
subclass: WDL
primaryDescriptorPath: /pipelines/skylab/optimus/Optimus.wdl
testParameterFiles:
- /warp/pipelines/skylab/optimus/example_inputs/human_v3_example.json
- name: snm3C-seq
subclass: WDL
primaryDescriptorPath: /pipelines/skylab/snm3C/snm3C.wdl
- name: Smartseq2_Multisample
subclass: WDL
primaryDescriptorPath: /pipelines/skylab/smartseq2_multisample/MultiSampleSmartSeq2.wdl
- name: Smartseq2_Single_Sample
subclass: WDL
primaryDescriptorPath: /pipelines/skylab/smartseq2_single_sample/SmartSeq2SingleSample.wdl
- name: Smartseq2_Single_Nucleus_Multisample
subclass: WDL
primaryDescriptorPath: /pipelines/skylab/smartseq2_single_nucleus_multisample/MultiSampleSmartSeq2SingleNucleus.wdl
- name: Smartseq2_Single_Nucleus
subclass: WDL
primaryDescriptorPath: /pipelines/skylab/smartseq2_single_nucleus/SmartSeq2SingleNucleus.wdl
- name: IlluminaGenotypingArray
subclass: WDL
primaryDescriptorPath: /pipelines/broad/genotyping/illumina/IlluminaGenotypingArray.wdl
- name: scATAC
subclass: WDL
primaryDescriptorPath: /pipelines/skylab/scATAC/scATAC.wdl
- name: JointGenotyping
subclass: WDL
primaryDescriptorPath: /pipelines/broad/dna_seq/germline/joint_genotyping/JointGenotyping.wdl
- name: ExomeGermlineSingleSample
subclass: WDL
primaryDescriptorPath: /pipelines/broad/dna_seq/germline/single_sample/exome/ExomeGermlineSingleSample.wdl
- name: WholeGenomeGermlineSingleSample
subclass: WDL
primaryDescriptorPath: /pipelines/broad/dna_seq/germline/single_sample/wgs/WholeGenomeGermlineSingleSample.wdl
- name: OptimusHcaAdapter
subclass: WDL
primaryDescriptorPath: /projects/optimus/CreateOptimusAdapterMetadata.wdl
- name: Ss2HcaAdapter
subclass: WDL
primaryDescriptorPath: /projects/smartseq2/CreateSs2AdapterMetadata.wdl
- name: CEMBA
subclass: WDL
primaryDescriptorPath: /pipelines/cemba/cemba_methylcseq/CEMBA.wdl
- name: ReblockGVCF
subclass: WDL
primaryDescriptorPath: /pipelines/broad/dna_seq/germline/joint_genotyping/reblocking/ReblockGVCF.wdl
- name: Arrays
subclass: WDL
primaryDescriptorPath: /pipelines/broad/arrays/single_sample/Arrays.wdl
- name: Imputation
subclass: WDL
primaryDescriptorPath: /pipelines/broad/arrays/imputation/Imputation.wdl
- name: RNAWithUMIsPipeline
subclass: WDL
primaryDescriptorPath: /pipelines/broad/rna_seq/RNAWithUMIsPipeline.wdl
- name: BroadInternalRNAWithUMIs
subclass: WDL
primaryDescriptorPath: /pipelines/broad/internal/rna_seq/BroadInternalRNAWithUMIs.wdl
- name: Arrays_TDR
subclass: WDL
primaryDescriptorPath: /pipelines/broad/internal/arrays/single_sample/BroadInternalArrays.wdl
- name: Imputation_TDR
subclass: WDL
primaryDescriptorPath: /pipelines/broad/internal/arrays/imputation/BroadInternalImputation.wdl
- name: UltimaGenomicsWholeGenomeGermline
subclass: WDL
primaryDescriptorPath: /pipelines/broad/dna_seq/germline/single_sample/ugwgs/UltimaGenomicsWholeGenomeGermline.wdl
- name: BroadInternalUltimaGenomics
subclass: WDL
primaryDescriptorPath: /pipelines/broad/internal/dna_seq/germline/single_sample/UltimaGenomics/BroadInternalUltimaGenomics.wdl
- name: UltimaGenomicsJointGenotyping
subclass: WDL
primaryDescriptorPath: /pipelines/broad/dna_seq/germline/joint_genotyping/UltimaGenomics/UltimaGenomicsJointGenotyping.wdl
- name: UltimaGenomicsWholeGenomeCramOnly
subclass: WDL
primaryDescriptorPath: /pipelines/broad/dna_seq/somatic/single_sample/ugwgs/UltimaGenomicsWholeGenomeCramOnly.wdl
- name: BuildIndices
subclass: WDL
primaryDescriptorPath: /pipelines/skylab/build_indices/BuildIndices.wdl
- name: SlideSeq
subclass: WDL
primaryDescriptorPath: /pipelines/skylab/slideseq/SlideSeq.wdl
- name: Multiome
subclass: WDL
primaryDescriptorPath: /pipelines/skylab/multiome/Multiome.wdl
- name: PairedTag
subclass: WDL
primaryDescriptorPath: /pipelines/skylab/paired_tag/PairedTag.wdl
- name: atac
subclass: WDL
primaryDescriptorPath: /pipelines/skylab/atac/atac.wdl
- name: TestIlluminaGenotypingArray
subclass: WDL
primaryDescriptorPath: /verification/test-wdls/TestIlluminaGenotypingArray.wdl
- name: VariantCalling
subclass: WDL
primaryDescriptorPath: /pipelines/broad/dna_seq/germline/variant_calling/VariantCalling.wdl
- name: SlideTags
subclass: WDL
primaryDescriptorPath: /beta-pipelines/skylab/slidetags/SlideTags.wdl