Explore Workflows

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

Graph Name Retrieved From View
workflow graph bwa_pe.cwl

https://github.com/nci-gdc/gdc-dnaseq-cwl.git

Path: workflows/bamfastq_align/bwa_pe.cwl

Branch/Commit ID: dd7f86b3cc10eb1cda07dc2fc279ba2529c8ad61
workflow graph EMG pipeline v4.0 (paired end version)

https://github.com/EBI-Metagenomics/ebi-metagenomics-cwl.git

Path: workflows/emg-pipeline-v4-paired.cwl

Branch/Commit ID: ecf044f3a5a7589cb2238487a19f22863c2bcdb1
workflow graph Transcriptome assembly workflow (paired-end version)

https://github.com/mscheremetjew/workflow-is-cwl.git

Path: workflows/TranscriptomeAssembly-wf.paired-end.cwl

Branch/Commit ID: b837972f9d442f9fd1e0cbc8be83754032b2c0fe
workflow graph mutect panel-of-normals workflow

https://github.com/fgomez02/analysis-workflows.git

Path: definitions/pipelines/panel_of_normals.cwl

Branch/Commit ID: 9c9e6a6a48eb321804ce772a2c2c12b4f2f32529
workflow graph fastq_clean_pe.cwl

https://github.com/nci-gdc/gdc-dnaseq-cwl.git

Path: workflows/bamfastq_align/fastq_clean_pe.cwl

Branch/Commit ID: dd7f86b3cc10eb1cda07dc2fc279ba2529c8ad61
workflow graph 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: 7a4593d2fa5b2fcbedc9219dc5687a4bc5aea66a
workflow graph 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: d6ec0dee61ef65a110e10141bde1a79332a64ab0
workflow graph rnaseq-star-rsem-pe.cwl

https://github.com/pitagora-network/DAT2-cwl.git

Path: workflow/rna-seq/rnaseq-star-rsem-pe/rnaseq-star-rsem-pe.cwl

Branch/Commit ID: 6db4456ca7314b036e59f50910654066da99772a
workflow graph workflow.cwl

https://github.com/nal-i5k/organism_onboarding.git

Path: flow_apollo2_data_processing/processing/workflow.cwl

Branch/Commit ID: 0ecf492419ddaa015f14a163381948c53b3deea6
workflow graph Gene expression merge - combines RPKM gene expression from several experiments

Gene expression merge - combines RPKM gene expression from several experiments =================================================================================== Workflows merges RPKM gene expression from several experiments based on the values from GeneId, Chrom, TxStart, TxEnd and Strand columns. Reported RPKM columns are renamed based on the experiments names.

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

Path: workflows/feature-merge.cwl

Branch/Commit ID: 8a92669a566589d80fde9d151054ffc220ed4ddd