Explore Workflows

This workflow will run OxoG, variantbam, and annotate. Run this as `dockstore --script --debug workflow launch --descriptor cwl --local-entry --entry ./oxog_varbam_annotate_wf.cwl --json oxog_varbam_annotat_wf.input.json `

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

Path: pcawg_minibam_wf.cwl

Branch/Commit ID: 1.0.0

https://github.com/ncbi/pgap.git

Path: progs/protein_extract.cwl

Branch/Commit ID: 068222510fdab75046c7f733a0cc919e36744ade

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

https://github.com/ICGC-TCGA-PanCancer/OxoG-Dockstore-Tools.git

Path: oxog_sub_wf.cwl

Branch/Commit ID: develop

https://github.com/apaul7/cancer-genomics-workflow.git

Path: definitions/subworkflows/strelka_and_post_processing.cwl

Branch/Commit ID: low-vaf

https://gitlab.com/unduthegun/stellaris-emblem-lab.git

Path: textures/emblem_textures.cwl

Branch/Commit ID: master

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

Path: steps/bulk_analysis.cwl

Branch/Commit ID: 302f1f3

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

Path: tests/wf/packed_no_main.cwl

Branch/Commit ID: main

Packed ID: collision

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

Path: tools/rRNA_selection.cwl

Branch/Commit ID: 6c856cd

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

Path: workflows/emg-qc-paired.cwl

Branch/Commit ID: master

Generates a FASTA file with the DNA sequences for all transcripts in a GFF file and builds kallisto index

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

Path: tools/genome-kallisto-index.cwl

Branch/Commit ID: master