Explore Workflows

View already parsed workflows here or click here to add your own

Graph	Name	Retrieved From	View
	Detect Docm variants	https://github.com/genome/analysis-workflows.git Path: definitions/subworkflows/docm_cle.cwl Branch/Commit ID: 7b4b489474473c3d2d992a838b89632c2b97dc2c
	bam-bedgraph-bigwig.cwl Workflow converts input BAM file into bigWig and bedGraph files. Input BAM file should be sorted by coordinates (required by `bam_to_bedgraph` step). If `split` input is not provided use true by default. Default logic is implemented in `valueFrom` field of `split` input inside `bam_to_bedgraph` step to avoid possible bug in cwltool with setting default values for workflow inputs. `scale` has higher priority over the `mapped_reads_number`. The last one is used to calculate `-scale` parameter for `bedtools genomecov` (step `bam_to_bedgraph`) only in a case when input `scale` is not provided. All logic is implemented inside `bedtools-genomecov.cwl`. `bigwig_filename` defines the output name only for generated bigWig file. `bedgraph_filename` defines the output name for generated bedGraph file and can influence on generated bigWig filename in case when `bigwig_filename` is not provided. All workflow inputs and outputs don't have `format` field to avoid format incompatibility errors when workflow is used as subworkflow.	https://github.com/datirium/workflows.git Path: tools/bam-bedgraph-bigwig.cwl Branch/Commit ID: 78955730b492047429e00d0a0620d37efb6dbbfe
	gcaccess_from_list	https://github.com/ncbi/pgap.git Path: task_types/tt_gcaccess_from_list.cwl Branch/Commit ID: 16e3915d2a357e2a861b30911c832e5ddc0c1784
	count-lines10-wf.cwl	https://github.com/common-workflow-language/cwltool.git Path: cwltool/schemas/v1.0/v1.0/count-lines10-wf.cwl Branch/Commit ID: 09323506da219ba3ddb5313bd83022b52cac9adc
	paramref_arguments_self.cwl	https://github.com/common-workflow-language/cwltool.git Path: tests/wf/paramref_arguments_self.cwl Branch/Commit ID: f453cdce5956fe6581f5ccdcb8aacb8c4f29f6d4
	QuantSeq 3' FWD, FWD-UMI or REV for single-read mRNA-Seq data ### Devel version of QuantSeq 3' FWD, FWD-UMI or REV for single-read mRNA-Seq data	https://github.com/datirium/workflows.git Path: workflows/trim-quantseq-mrnaseq-se-strand-specific.cwl Branch/Commit ID: 564156a9e1cc7c3679a926c479ba3ae133b1bfd4
	Chipseq alignment with qc and creating homer tag directory	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/chipseq.cwl Branch/Commit ID: 788bdc99c1d5b6ee7c431c3c011eb30d385c1370
	kmer_cache_retrieve	https://github.com/ncbi/pgap.git Path: task_types/tt_kmer_cache_retrieve.cwl Branch/Commit ID: 76a9637a06e2102645eae29aff10b6f7185892a5
	WF6101.cwl	https://github.com/Marco-Salvi/dtc61.git Path: WF6101.cwl Branch/Commit ID: 668634ce0f044d6e9ccdbd839b015d384cbfb0ab
	cache_test_workflow.cwl	https://github.com/common-workflow-language/cwltool.git Path: tests/wf/cache_test_workflow.cwl Branch/Commit ID: 819c81af5449ec912bbbbead042ad66b8d3fd8d4