Explore Workflows

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

Graph Name Retrieved From View
workflow graph run-one.cwl

https://github.com/hubmapconsortium/hra-workflows.git

Path: steps/run-one.cwl

Branch/Commit ID: 3dfea9ce19138c930dec92024496c4814a290f12
workflow graph chipseq-pe.cwl

Runs ChIP-Seq BioWardrobe basic analysis with paired-end input data files.

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

Path: workflows/chipseq-pe.cwl

Branch/Commit ID: de847468843203ce92b6d19323c5fe77dc488e34
workflow graph Single-Cell Label Integration Analysis

Single-Cell Label Integration Analysis Harmonizes conflicting annotations in single-cell genomics studies.

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

Path: workflows/sc-triangulate.cwl

Branch/Commit ID: 69643d8c15f5357a320aa7e2f6adb2e71302fd20
workflow graph Single-Cell RNA-Seq Cluster Analysis

Single-Cell RNA-Seq Cluster Analysis Clusters cells by similarity of gene expression data from the outputs of the “Single-Cell RNA-Seq Dimensionality Reduction Analysis” pipeline. The results of this workflow are used in the “Single-Cell Manual Cell Type Assignment”, “Single-Cell RNA-Seq Differential Expression Analysis”, “Single-Cell RNA-Seq Trajectory Analysis”, and “Single-Cell Differential Abundance Analysis” pipelines.

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

Path: workflows/sc-rna-cluster.cwl

Branch/Commit ID: 69643d8c15f5357a320aa7e2f6adb2e71302fd20
workflow graph mut.cwl

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

Path: tests/wf/mut.cwl

Branch/Commit ID: 1b5633876aabd4cb57ef3f1fe91c853f3ee82e46
workflow graph AcceptParameterFailure

validation or review of parameter updates failed. Action required and feedback to be provided.

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

Path: workflows/AcceptParameterFailure.cwl

Branch/Commit ID: bf4d4a44a543bcc04f4508ce020751c71550acf5
workflow graph secret_wf.cwl

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

Path: tests/wf/secret_wf.cwl

Branch/Commit ID: 1b5633876aabd4cb57ef3f1fe91c853f3ee82e46
workflow graph Single-Cell WNN Cluster Analysis

Single-Cell WNN Cluster Analysis Clusters cells by similarity on the basis of both gene expression and chromatin accessibility data from the outputs of the “Single-Cell RNA-Seq Dimensionality Reduction Analysis” and “Single-Cell ATAC-Seq Dimensionality Reduction Analysis” pipelines run sequentially. The results of this workflow are used in the “Single-Cell Manual Cell Type Assignment”, “Single-Cell RNA-Seq Differential Expression Analysis”, “Single-Cell RNA-Seq Trajectory Analysis”, “Single-Cell Differential Abundance Analysis”, “Single-Cell ATAC-Seq Differential Accessibility Analysis”, and “Single-Cell ATAC-Seq Genome Coverage” pipelines.

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

Path: workflows/sc-wnn-cluster.cwl

Branch/Commit ID: 69643d8c15f5357a320aa7e2f6adb2e71302fd20
workflow graph Single-Cell Manual Cell Type Assignment

Single-Cell Manual Cell Type Assignment Assigns identities to cells clustered with any of the “Single-Cell Cluster Analysis” pipelines. For “Single-Cell RNA-Seq Cluster Analysis” the results of this workflow are used in the “Single-Cell RNA-Seq Differential Expression Analysis”, “Single-Cell RNA-Seq Trajectory Analysis”, and — when combined with outputs from the “Cell Ranger Count (RNA+VDJ)” or “Cell Ranger Aggregate (RNA, RNA+VDJ)” workflow — in the “Single-Cell Immune Profiling Analysis” pipeline. For “Single-Cell ATAC-Seq Cluster Analysis”, the results of this workflow are used in the “Single-Cell ATAC-Seq Differential Accessibility Analysis” and “Single-Cell ATAC-Seq Genome Coverage” pipelines. For “Single-Cell WNN Cluster Analysis”, the results of this workflow are used in all of the above, except the “Single-Cell Immune Profiling Analysis” pipeline.

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

Path: workflows/sc-ctype-assign.cwl

Branch/Commit ID: 69643d8c15f5357a320aa7e2f6adb2e71302fd20
workflow graph Cell Ranger Reference (RNA, ATAC, RNA+ATAC)

Cell Ranger Reference (RNA, ATAC, RNA+ATAC) Builds a reference genome of a selected species for quantifying gene expression and chromatin accessibility. The results of this workflow are used in all “Cell Ranger Count” and “Cell Ranger Aggregate” pipelines.

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

Path: workflows/cellranger-mkref.cwl

Branch/Commit ID: 69643d8c15f5357a320aa7e2f6adb2e71302fd20