Explore Workflows

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

Graph Name Retrieved From View
workflow graph heatmap-prepare.cwl

Workflow runs homer-make-tag-directory.cwl tool using scatter for the following inputs - bam_file - fragment_size - total_reads `dotproduct` is used as a `scatterMethod`, so one element will be taken from each array to construct each job: 1) bam_file[0] fragment_size[0] total_reads[0] 2) bam_file[1] fragment_size[1] total_reads[1] ... N) bam_file[N] fragment_size[N] total_reads[N] `bam_file`, `fragment_size` and `total_reads` arrays should have the identical order.

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

Path: tools/heatmap-prepare.cwl

Branch/Commit ID: e89b2c17aa5efccef6ca424dec5a0a021bd8d20c
workflow graph heatmap-prepare.cwl

Workflow runs homer-make-tag-directory.cwl tool using scatter for the following inputs - bam_file - fragment_size - total_reads `dotproduct` is used as a `scatterMethod`, so one element will be taken from each array to construct each job: 1) bam_file[0] fragment_size[0] total_reads[0] 2) bam_file[1] fragment_size[1] total_reads[1] ... N) bam_file[N] fragment_size[N] total_reads[N] `bam_file`, `fragment_size` and `total_reads` arrays should have the identical order.

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

Path: tools/heatmap-prepare.cwl

Branch/Commit ID: e89b2c17aa5efccef6ca424dec5a0a021bd8d20c
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