Explore Workflows

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

Graph	Name	Retrieved From	View
	allele-alignreads-se-pe.cwl Workflow maps FASTQ files from `fastq_files` input into reference genome `reference_star_indices_folder` and insilico generated `insilico_star_indices_folder` genome (concatenated genome for both `strain1` and `strain2` strains). For both genomes STAR is run with `outFilterMultimapNmax` parameter set to 1 to discard all of the multimapped reads. For insilico genome SAM file is generated. Then it's splitted into two SAM files based on strain names and then sorted by coordinates into the BAM format. For reference genome output BAM file from STAR slignment is also coordinate sorted.	https://github.com/datirium/workflows.git Path: subworkflows/allele-alignreads-se-pe.cwl Branch/Commit ID: a9551ece898f619167db58e4b74a6cae2d7f7d13
	scatter-wf4.cwl#main	https://github.com/common-workflow-language/cwltool.git Path: tests/wf/scatter-wf4.cwl Branch/Commit ID: 20d664eff23e59aa57908345bfdb1ceeab3438f2 Packed ID: main
	Nested workflow example	https://github.com/common-workflow-language/cwltool.git Path: tests/wf/nested.cwl Branch/Commit ID: 4c905b830371eee45188a53510ba0ee9113fd4c8
	step-valuefrom4-wf.cwl	https://github.com/common-workflow-language/common-workflow-language.git Path: v1.0/v1.0/step-valuefrom4-wf.cwl Branch/Commit ID: 9a23706ec061c5d2c02ff60238d218aadf0b5db9
	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: f997d13af87216e9b5048c732a511053c7ba714c
	unifiedgenotyper.cwl	https://github.com/uc-cdis/genomel_pipelines.git Path: genomel/cwl/workflows/variant_calling/unifiedgenotyper.cwl Branch/Commit ID: 342c8a39d5823bbcf298d2f807ec235910e5f412
	default-dir5.cwl	https://github.com/common-workflow-language/cwltool.git Path: tests/wf/default-dir5.cwl Branch/Commit ID: 1441c285e8a5afe399f5d52ca9059cb8bb513edb
	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: 6003cbb94f16103241b562f2133e7c4acac6c621
	Genome conversion and annotation Workflow for genome annotation from EMBL format	https://git.wur.nl/unlock/cwl.git Path: cwl/workflows/workflow_sapp_others.cwl Branch/Commit ID: d944d61ddc34a5b24ebac6e1701efd6f8fdf54ae
	assemble.cwl Assemble a set of reads using SKESA	https://github.com/ncbi/pgap.git Path: assemble.cwl Branch/Commit ID: f5d70f3ad365a2c017fab1c9654c88bc1caf41aa