Explore Workflows

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

Graph Name Retrieved From View
workflow graph scatter-valuefrom-wf1.cwl

https://github.com/common-workflow-language/cwltool.git

Path: cwltool/schemas/v1.0/v1.0/scatter-valuefrom-wf1.cwl

Branch/Commit ID: 20d664eff23e59aa57908345bfdb1ceeab3438f2
workflow graph dynresreq-workflow.cwl

https://github.com/common-workflow-language/cwltool.git

Path: cwltool/schemas/v1.0/v1.0/dynresreq-workflow.cwl

Branch/Commit ID: 45d6236961118f409c45c1967e1f44b167b737a0
workflow graph exome alignment and somatic variant detection

https://github.com/genome/analysis-workflows.git

Path: definitions/pipelines/somatic_exome_nonhuman.cwl

Branch/Commit ID: 889a077a20c0fdb01f4ed97aa4bc40f920c37a1a
workflow graph umi duplex alignment fastq workflow

https://github.com/genome/analysis-workflows.git

Path: definitions/pipelines/umi_duplex_alignment.cwl

Branch/Commit ID: 526df6d2937f92ecd00c3029748958faa692ac55
workflow graph basename-fields-test.cwl

https://github.com/common-workflow-language/common-workflow-language.git

Path: v1.0/v1.0/basename-fields-test.cwl

Branch/Commit ID: 8dbb46740ea700469b609ae9a05f13e95cb5af6a
workflow graph exome alignment and tumor-only variant detection

https://github.com/genome/analysis-workflows.git

Path: definitions/pipelines/exome.cwl

Branch/Commit ID: 1437aed13d240fd624f78df2c7efb096c5079d73
workflow graph process VCF workflow

https://github.com/genome/analysis-workflows.git

Path: definitions/subworkflows/strelka_process_vcf.cwl

Branch/Commit ID: de81bd20ce8829ef64146115902a10e4fe7bad0b
workflow graph retrieve sequence and perform pairwise alignment (sub-workflow process)

\"Perform pairwise alignment of protein sequences for pairs identified by structural similarity search. Step 1: blastdbcmd: ../Tools/14_blastdbcmd.cwl Step 2: seqretsplit: ../Tools/15_seqretsplit.cwl Step 3: needle (Global alignment): ../Tools/16_needle.cwl Step 4: water (Local alignment): ../Tools/16_water.cwl \"

https://github.com/yonesora56/plant2human.git

Path: Workflow/11_retrieve_sequence_swf.cwl

Branch/Commit ID: 62a2b6767507ea65ddd36b853b539060840bde48
workflow graph 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/Barski-lab/workflows.git

Path: tools/bam-bedgraph-bigwig.cwl

Branch/Commit ID: 30e58892852641802b37912608fafbd8dc98918a
workflow graph count-lines7-wf.cwl

https://github.com/common-workflow-language/cwltool.git

Path: cwltool/schemas/v1.0/v1.0/count-lines7-wf.cwl

Branch/Commit ID: 19f2cb6e21db8624155c7e253b89c57df536fcc1