Explore Workflows

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

Graph Name Retrieved From View
workflow graph Build Bowtie indices

Workflow runs [Bowtie](http://bowtie-bio.sourceforge.net/tutorial.shtml) v1.2.0 (12/30/2016) to build indices for reference genome provided in a single FASTA file as fasta_file input. Generated indices are saved in a folder with the name that corresponds to the input genome

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

Path: workflows/bowtie-index.cwl

Branch/Commit ID: 36fd18f11e939d3908b1eca8d2939402f7a99b0f
workflow graph Subworkflow to allow calling cnvkit with cram instead of bam files

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

Path: definitions/subworkflows/cram_to_cnvkit.cwl

Branch/Commit ID: 0805e8e0d358136468e0a9f49e06005e41965adc
workflow graph Cell Ranger Count (RNA+ATAC)

Cell Ranger Count (RNA+ATAC) Quantifies single-cell gene expression and chromatin accessibility of the sequencing data from a single 10x Genomics library in a combined manner. The results of this workflow are primarily used in either “Single-Cell Multiome ATAC and RNA-Seq Filtering Analysis” or “Cell Ranger Aggregate (RNA+ATAC)” pipelines.

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

Path: workflows/cellranger-arc-count.cwl

Branch/Commit ID: 93b844a80f4008cc973ea9b5efedaff32a343895
workflow graph count-lines1-wf.cwl

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

Path: tests/wf/count-lines1-wf.cwl

Branch/Commit ID: cd1ba3df3745fba4b635f05c67ebeaf3b8a9f4ec
workflow graph canine_bamstats_module.cwl

https://github.com/d3b-center/canine-dev.git

Path: subworkflows/canine_bamstats_module.cwl

Branch/Commit ID: 462aaebbd442e84ea101b45b716df0174b88512e
workflow graph protein annotation

Proteins - predict, cluster, identify, annotate

 https://github.com/MG-RAST/pipeline.git

Path: CWL/Workflows/protein-annotation.workflow.cwl

Branch/Commit ID: 49e29dfc5b1f7a7630831a1052f9136caa29dbf7
workflow graph tt_blastn_wnode

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

Path: task_types/tt_blastn_wnode.cwl

Branch/Commit ID: 6fad27f92dd604eca0e341178f594a560d70953b
workflow graph umi duplex alignment workflow

https://github.com/apaul7/cancer-genomics-workflow.git

Path: definitions/subworkflows/duplex_alignment.cwl

Branch/Commit ID: bfcb5ffbea3d00a38cc03595d41e53ea976d599d
workflow graph Tumor-Only Detect Variants workflow

https://github.com/apaul7/cancer-genomics-workflow.git

Path: definitions/pipelines/tumor_only_detect_variants.cwl

Branch/Commit ID: bfcb5ffbea3d00a38cc03595d41e53ea976d599d
workflow graph bwa_index

https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git

Path: structuralvariants/subworkflows/bwa_index.cwl

Branch/Commit ID: e1fd26587a78afc376c10bf6db36abd2c840768e