Explore Workflows

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

Graph Name Retrieved From View
workflow graph scatter-wf2.cwl

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

Path: cwltool/schemas/v1.0/v1.0/scatter-wf2.cwl

Branch/Commit ID: 5ef2516220cd2ed327ba7966e7d812de969f4eea
workflow graph Detect Variants workflow

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

Path: definitions/pipelines/detect_variants.cwl

Branch/Commit ID: 18600518ce6539a2e29c1707392a4c5da5687fa3
workflow graph list ZIP content by URL

curl will download a HTTP/HTTPS resource or file from a given URL, following any redirections.

https://github.com/stain/ro-index-paper.git

Path: code/data-gathering/workflows/zip-content-by-url.cwl

Branch/Commit ID: cd01d30ffc9e04b8804b62df5e985ebfa6f5b276
workflow graph functional-wf.cwl

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

Path: tests/checker_wf/functional-wf.cwl

Branch/Commit ID: 280a852e74aec08cf79687e8004e17b1ab464534
workflow graph bam-bedgraph-bigwig.cwl

Workflow converts input BAM file into bigWig and bedGraph files

https://github.com/Barski-lab/workflows.git

Path: subworkflows/bam-bedgraph-bigwig.cwl

Branch/Commit ID: 6dca77dfd89996079bff84d07849a1583455b54f
workflow graph kfdrc_bwamem_subwf.cwl

https://github.com/kids-first/kf-alignment-workflow.git

Path: workflows/kfdrc_bwamem_subwf.cwl

Branch/Commit ID: 9e983f1d09892dfc8c17bcb6ff59c075c86b46a6
workflow graph Run genomic CMsearch (5S rRNA)

https://github.com/ncbi/pgap.git

Path: bacterial_noncoding/wf_gcmsearch.cwl

Branch/Commit ID: 4ea5956bb97ea2eb6de124bc9b6a6a81a14fd2e7
workflow graph Xenbase RNA-Seq pipeline paired-end

1. Convert input SRA file into pair of upsrtream and downstream FASTQ files (run fastq-dump) 2. Analyze quality of FASTQ files (run fastqc with each of the FASTQ files) 3. If any of the following fields in fastqc generated report is marked as failed for at least one of input FASTQ files: \"Per base sequence quality\", \"Per sequence quality scores\", \"Overrepresented sequences\", \"Adapter Content\", - trim adapters (run trimmomatic) 4. Align original or trimmed FASTQ files to reference genome, calculate genes and isoforms expression (run RSEM) 5. Count mapped reads number in sorted BAM file (run bamtools stats) 6. Generate genome coverage BED file (run bedtools genomecov) 7. Sort genearted BED file (run sort) 8. Generate genome coverage bigWig file from BED file (run bedGraphToBigWig)

https://github.com/datirium/workflows.git

Path: workflows/xenbase-rnaseq-pe.cwl

Branch/Commit ID: dda9e6e06a656b7b3fa7504156474b962fe3953c
workflow graph scatter-valuefrom-wf3.cwl#main

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

Path: cwltool/schemas/v1.0/v1.0/scatter-valuefrom-wf3.cwl

Branch/Commit ID: 4a5fe26e32d244d95f9483c3edfc3df04f3e5f7b

Packed ID: main
workflow graph scatter-wf2.cwl

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

Path: cwltool/schemas/v1.0/v1.0/scatter-wf2.cwl

Branch/Commit ID: 665141f319e6b23bd9924b14844f2e979f141944