Explore Workflows

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

Graph Name Retrieved From View
workflow graph count-lines7-wf_v1_1.cwl

https://github.com/common-workflow-language/cwl-utils.git

Path: testdata/count-lines7-wf_v1_1.cwl

Branch/Commit ID: 8058c7477097f90205dd7d8481781eb3737ea9c9
workflow graph ViPhOG annotations

\"Run viral_contigs_annotation.py on an array of files\"

https://github.com/EBI-Metagenomics/emg-viral-pipeline.git

Path: cwl/src/Tools/Annotation/viral_annotation_swf.cwl

Branch/Commit ID: b0ed3f07c8faced85609287759596ad83e154977
workflow graph snaptools_create_snap_file.cwl

https://github.com/hubmapconsortium/sc-atac-seq-pipeline.git

Path: steps/snaptools_create_snap_file.cwl

Branch/Commit ID: 44dbe381f68878ab607b167b62267c4ea97f3322
workflow graph Filter single sample sv vcf from depth callers(cnvkit/cnvnator)

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

Path: definitions/subworkflows/sv_depth_caller_filter.cwl

Branch/Commit ID: efbbe5ed51f6ac583e87a348785c72818a33f56e
workflow graph Filter ChIP/ATAC/cut&run/diffbind peaks for Tag Density Profile or Motif Enrichment analyses

Filters ChIP/ATAC/cut&run/diffbind peaks with the neatest genes assigned for Tag Density Profile or Motif Enrichment analyses ============================================================================================================ Tool filters output from any ChIP/ATAC/cut&run/diffbind pipeline to create a file with regions of interest for Tag Density Profile or Motif Enrichment analyses. Peaks with duplicated coordinates are discarded.

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

Path: workflows/filter-peaks-for-heatmap.cwl

Branch/Commit ID: fa4f172486288a1a9d23864f1d6962d85a453e16
workflow graph Subworkflow that runs cnvkit in single sample mode and returns a vcf file

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

Path: definitions/subworkflows/cnvkit_single_sample.cwl

Branch/Commit ID: efbbe5ed51f6ac583e87a348785c72818a33f56e
workflow graph Restore contig names

Restore the contig names using the map file in ppmeta, virfinder and virsorter output files.

https://github.com/EBI-Metagenomics/emg-viral-pipeline.git

Path: cwl/src/Tools/RestoreOutputNames/restore_tools_outputs_swf.cwl

Branch/Commit ID: b0ed3f07c8faced85609287759596ad83e154977
workflow graph Filter single sample sv vcf from paired read callers(Manta/Smoove)

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

Path: definitions/subworkflows/sv_paired_read_caller_filter.cwl

Branch/Commit ID: efbbe5ed51f6ac583e87a348785c72818a33f56e
workflow graph stdout-wf_v1_0.cwl

https://github.com/common-workflow-language/cwl-utils.git

Path: testdata/stdout-wf_v1_0.cwl

Branch/Commit ID: 8058c7477097f90205dd7d8481781eb3737ea9c9
workflow graph fasta2taxa-plot

Input is a fasta file with n>1 samples, with sample id as sequence identifier prefix, and a sample id file. The workflow calls open otus and assigns taxa using greengenes. The output are taxa plots.

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

Path: CWL/Workflows/qiime/join-reads2plot.cwl

Branch/Commit ID: 3565f6f4d26f5709aff56e6a266dbb7c7d6129d8