Explore Workflows

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Graph Name Retrieved From View
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: 12edfc2207507e53c6b5bb21e50decb5535a12f7
workflow graph Single-cell RNA-Seq Alignment

Single-cell RNA-Seq Alignment Runs Cell Ranger Count to quantify gene expression from a single-cell RNA-Seq library.

 https://github.com/Barski-lab/scRNA-Seq-Analysis.git

Path: workflows/sc-rna-align-wf.cwl

Branch/Commit ID: 7bbe737324bb6f21f244dea09a926dc2774ed731
workflow graph Single-cell Multiome ATAC and RNA-Seq Aggregate

Single-cell Multiome ATAC and RNA-Seq Aggregate Aggregates data from multiple Single-cell Multiome ATAC and RNA-Seq Alignment experiments

 https://github.com/Barski-lab/sc-seq-analysis.git

Path: workflows/sc-multiome-aggregate-wf.cwl

Branch/Commit ID: e70b7fab45e4bd2abfb7dab2b8b1f79ce904ac69
workflow graph Single-cell Multiome ATAC and RNA-Seq Alignment

Single-cell Multiome ATAC and RNA-Seq Alignment Runs Cell Ranger ARC Count to quantifies chromatin accessibility and gene expression from a single-cell Multiome ATAC and RNA-Seq library

 https://github.com/Barski-lab/scRNA-Seq-Analysis.git

Path: workflows/sc-multiome-align-wf.cwl

Branch/Commit ID: 7bbe737324bb6f21f244dea09a926dc2774ed731
workflow graph Single-cell RNA-Seq Aggregate

Single-cell RNA-Seq Aggregate Aggregates gene expression data from multiple Single-cell RNA-Seq Alignment experiments.

 https://github.com/Barski-lab/scRNA-Seq-Analysis.git

Path: workflows/sc-rna-aggregate-wf.cwl

Branch/Commit ID: 7bbe737324bb6f21f244dea09a926dc2774ed731
workflow graph Single-cell Multiome ATAC and RNA-Seq Aggregate

Single-cell Multiome ATAC and RNA-Seq Aggregate Aggregates data from multiple Single-cell Multiome ATAC and RNA-Seq Alignment experiments

 https://github.com/Barski-lab/scRNA-Seq-Analysis.git

Path: workflows/sc-multiome-aggregate-wf.cwl

Branch/Commit ID: 7bbe737324bb6f21f244dea09a926dc2774ed731
workflow graph Single-cell Reference Indices

Single-cell Reference Indices Builds a Cell Ranger and Cell Ranger ARC compatible reference folders from the custom genome FASTA and gene GTF annotation files

 https://github.com/Barski-lab/scRNA-Seq-Analysis.git

Path: workflows/sc-ref-indices-wf.cwl

Branch/Commit ID: 7bbe737324bb6f21f244dea09a926dc2774ed731
workflow graph directory.cwl

Inspect provided directory and return filenames. Generate a new directory and return it (including content).

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

Path: tests/wf/directory.cwl

Branch/Commit ID: 4642316a30a95d4f3d135c18f98477886b160094
workflow graph genomics-workspace-cds.cwl

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

Path: flow_genomicsWorkspace/genomics-workspace-cds.cwl

Branch/Commit ID: 677d79c721ad5f7a7e09b693d7f3fe2da70826e2
workflow graph split-bams-by-strand-and-index.cwl

Split reads in a BAM file by strands and index forward and reverse output BAM files

 https://github.com/alexbarrera/ggr-cwl.git

Path: v1.0/quant/split-bams-by-strand-and-index.cwl

Branch/Commit ID: 7696e7eb27a9251fba53ef4ccacc84cc8f8b0685