Explore Workflows

https://github.com/DataBiosphere/topmed-workflows.git

Path: aligner/sbg-alignment-cwl/topmed-alignment.cwl

Branch/Commit ID: master

This workflow takes in appropriate trimming params and demultiplexed reads, and performs the following steps in order: trimx1, trimx2, fastq-sort, filter repeat elements, fastq-sort, genomic mapping, sort alignment, index alignment, namesort, PCR dedup, sort alignment, index alignment

https://github.com/YeoLab/eclip.git

Path: cwl/wf_trim_and_map_se_nostats.cwl

Branch/Commit ID: master

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

Path: v1.0/v1.0/count-lines3-wf.cwl

Branch/Commit ID: master

https://github.com/hubmapconsortium/sprm.git

Path: pipeline.cwl

Branch/Commit ID: dd8c266

https://github.com/common-workflow-language/cwl-v1.2.git

Path: tests/io-int-default-wf.cwl

Branch/Commit ID: main

https://github.com/EBI-Metagenomics/workflow-is-cwl.git

Path: workflows/TranscriptsAnnotation-wf.cwl

Branch/Commit ID: assembly

https://github.com/EBI-Metagenomics/ebi-metagenomics-cwl.git

Path: tools/tRNA_selection.cwl

Branch/Commit ID: 9c57dba

https://github.com/ProteinsWebTeam/ebi-metagenomics-cwl.git

Path: workflows/emg-pipeline-v3.cwl

Branch/Commit ID: 5833078

This is a subworkflow - this is not meant to be run as a stand-alone workflow!

https://github.com/ICGC-TCGA-PanCancer/pcawg-oxog-filter.git

Path: oxog_sub_wf.cwl

Branch/Commit ID: 1.0.0

https://github.com/ddbj/human-reseq.git

Path: Workflows/bams2gvcf.woBQSR_female.multisamples.cwl

Branch/Commit ID: master