Explore Workflows

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

Graph Name Retrieved From View
workflow graph allele-vcf-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/Barski-lab/workflows.git

Path: subworkflows/allele-vcf-alignreads-se-pe.cwl

Branch/Commit ID: eb2c3facf657e80cc0fb1bf34b3733ee07b76ee2
workflow graph count-lines11-null-step-wf-noET.cwl

https://github.com/common-workflow-language/cwl-v1.2.git

Path: tests/count-lines11-null-step-wf-noET.cwl

Branch/Commit ID: 4fa45edd0c445c1cff7dee986d69a31cdd5e5dff
workflow graph Subworkflow for Annotation

\"Subworkflow for Metagenome Annotation This subworkflow is for annotation of predicted protein coding sequences. \"

https://github.com/RyoMameda/workflow_cwl.git

Path: Workflow/annotation_sw.cwl

Branch/Commit ID: 1838569c1d6d3c15f58c254667d4c6258e67e5a6
workflow graph kmer_ref_compare_wnode

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

Path: task_types/tt_kmer_ref_compare_wnode.cwl

Branch/Commit ID: ed27a47e80a85c76cb7285a78965d59537f79f10
workflow graph search.cwl#main

https://github.com/common-workflow-language/cwl-v1.2.git

Path: tests/search.cwl

Branch/Commit ID: 4fa45edd0c445c1cff7dee986d69a31cdd5e5dff

Packed ID: main
workflow graph merge_svs.cwl

https://github.com/common-workflow-lab/wdl-cwl-translator.git

Path: wdl2cwl/tests/cwl_files/merge_svs.cwl

Branch/Commit ID: d501990e04bc23c4927da5e56351ff8a271c75cb
workflow graph Filter Protein Seeds; Find ProSplign Alignments

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

Path: protein_alignment/wf_compart_filter_prosplign.cwl

Branch/Commit ID: ed27a47e80a85c76cb7285a78965d59537f79f10
workflow graph align_and_count.cwl

https://github.com/common-workflow-lab/wdl-cwl-translator.git

Path: wdl2cwl/tests/cwl_files/align_and_count.cwl

Branch/Commit ID: 3df778190c16ee0c284a7017ca3173276cb91045
workflow graph rnaseq-se-dutp.cwl

Runs RNA-Seq dUTP BioWardrobe basic analysis with strand specific single-end data file.

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

Path: workflows/rnaseq-se-dutp.cwl

Branch/Commit ID: 89082ba8d398033dee84c37a84c6547466c1f2d2
workflow graph workflow_input_format_expr_v1_1.cwl

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

Path: testdata/workflow_input_format_expr_v1_1.cwl

Branch/Commit ID: ed26684328ca370c247f549166f3edcb14a2f9e0