Explore Workflows

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

Path: cwltool/schemas/v1.0/v1.0/scatter-wf4.cwl

Branch/Commit ID: 5c7799a145595323d0a8628be1fe0e24985e793a

Packed ID: main

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: 7826a52718f052b53cc3872dcb3619a61babb44b

https://github.com/kids-first/kf-alignment-workflow.git

Path: workflows/kfdrc_sentieon_gvcf_wf.cwl

Branch/Commit ID: 4b8dc1e00d3dd082ee31629afdeda6103f75dc3a

https://github.com/kids-first/kf-rnaseq-workflow.git

Path: workflow/kfdrc_annoFuse_wf.cwl

Branch/Commit ID: 65161d6565c436a7b1e0b3be56efb433a994ed9d

Cell Ranger Aggregate =====================

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

Path: workflows/cellranger-aggr.cwl

Branch/Commit ID: c6bfa0de917efb536dd385624fc7702e6748e61d

Single-cell Manual Cell Type Assignment Assigns cell types for clusters based on the provided metadata file.

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

Path: workflows/sc-ctype-assign.cwl

Branch/Commit ID: 7030da528559c7106d156284e50ff0ecedab0c4e

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

Path: definitions/subworkflows/strelka_process_vcf.cwl

Branch/Commit ID: da335d9963418f7bedd84cb2791a0df1b3165ffe

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

Path: tests/wf/wffail.cwl

Branch/Commit ID: 55ccde7c2fe3e7899136ce8606a341e292d7050a

Super-enhancers, consist of clusters of enhancers that are densely occupied by the master regulators and Mediator. Super-enhancers differ from typical enhancers in size, transcription factor density and content, ability to activate transcription, and sensitivity to perturbation. Use to create stitched enhancers, and to separate super-enhancers from typical enhancers using sequencing data (.bam) given a file of previously identified constituent enhancers (.gff)

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

Path: workflows/super-enhancer.cwl

Branch/Commit ID: bf80c9339d81a78aefb8de661bff998ed86e836e

# Set Operations for filtered gene lists This workflow takes as input multiple filtered genelists samples and performs the user-selected set operation on them. There is one input for list A from which \"scores\" will be taken (these are fold change values from deseq or diffbind) and used in the output set list. The second genelist input is for 1+ genelists, that will be aggregated and used for intersection and union directly, and be applied against list A for the relative complement operation. The output is a single filtered gene list in the same format as the input files (headerless BED file with [chrom start end name score strand]). The returned score value (column 5) is always derived from file A.

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

Path: workflows/genelists-sets.cwl

Branch/Commit ID: 261c0232a7a40880f2480b811ed2d7e89c463869