Explore Workflows

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

Graph	Name	Retrieved From	View
	directory.cwl Inspect provided directory and return filenames. Generate a new directory and return it (including content).	https://github.com/common-workflow-language/cwltool.git Path: tests/wf/directory.cwl Branch/Commit ID: 10492acee927c177933160f6ad67085f9112b0d1
	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: 2caa50434966ebdf4b33e5ca689c2e4df32f9058
	no-outputs-wf.cwl Workflow without outputs.	https://github.com/common-workflow-language/cwl-v1.1.git Path: tests/no-outputs-wf.cwl Branch/Commit ID: 0e37d46e793e72b7c16b5ec03e22cb3ce1f55ba3
	process VCF workflow	https://github.com/genome/analysis-workflows.git Path: definitions/subworkflows/strelka_process_vcf.cwl Branch/Commit ID: d297528e53b6c1ecb69b1ab27b8e03323b4463ad
	cache_asnb_entries	https://github.com/ncbi/pgap.git Path: task_types/tt_cache_asnb_entries.cwl Branch/Commit ID: 22ffe27d9d4a899def7592d75d5871c1856adbdb
	cache_asnb_entries	https://github.com/ncbi/pgap.git Path: task_types/tt_cache_asnb_entries.cwl Branch/Commit ID: 8a8fffb78b1e327ba0da51840ac8acc0c218d611
	mutect panel-of-normals workflow	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/panel_of_normals.cwl Branch/Commit ID: 8cee1920920ed73384fb3ab74272da9c92a20cf2
	kmer_seq_entry_extract_wnode	https://github.com/ncbi/pgap.git Path: task_types/tt_kmer_seq_entry_extract_wnode.cwl Branch/Commit ID: 91181df8d9ef8eed9d8f40db707b9a4376fecaf5
	no-inputs-wf.cwl Workflow without inputs.	https://github.com/common-workflow-language/cwl-v1.1.git Path: tests/no-inputs-wf.cwl Branch/Commit ID: 0e37d46e793e72b7c16b5ec03e22cb3ce1f55ba3
	SetParameterFromExternal Receive parameter update (e.g., by querying an external source like a configuration or calibration database) or by expert input (e.g., by a member of a telescope team or a simulation pipeline expert).	https://gitlab.desy.de/gernot.maier/cwlsandbox.git Path: workflows/SetParameterFromExternal.cwl Branch/Commit ID: a1e30e9e2ffb9ef1edbbf4dbba63cf7ad53d2297