Explore Workflows

CWL version of the md_list.cwl workflow for HPC. This performs a system setup and runs a molecular dynamics simulation on the structure passed to this workflow. This workflow uses the md_gather.cwl sub-workflow to gather the outputs together to return these. To work with more than one structure this workflow can be called from either the md_launch.cwl workflow, or the md_launch_mutate.cwl workflow. These use scatter for parallelising the workflow. md_launch.cwl operates on a list of individual input molecule files. md_launch_mutate.cwl operates on a single input molecule file, and a list of mutations to apply to that molecule. Within that list of mutations, a value of 'WT' will indicate that the molecule should be simulated without any mutation being applied.

https://github.com/douglowe/biobb_hpc_cwl_md_list.git

Path: md_list.cwl

Branch/Commit ID: main

ATAC-seq 01 QC - reads: PE

https://github.com/alexbarrera/GGR-cwl.git

Path: v1.0/ATAC-seq_pipeline/01-qc-pe.cwl

Branch/Commit ID: master

https://github.com/KBNLresearch/ochre.git

Path: ochre/cwl/ocrevaluation-performance-wf-pack.cwl

Branch/Commit ID: master

Packed ID: ocrevaluation-performance-wf.cwl

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

Path: workflows/emg-pipeline-v3.cwl

Branch/Commit ID: fa86fce

https://github.com/CompEpigen/PipelineOlympics.git

Path: CWL/workflows/Biscuit/tools/biscuit_trim_align_dedup_sort_merge.cwl

Branch/Commit ID: main

Serial combination of KnowEnG tools

https://github.com/KnowEnG-Research/cwl-specification.git

Path: code/workflow.sc.cwl

Branch/Commit ID: master

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

Path: definitions/pipelines/tumor_only_detect_variants.cwl

Branch/Commit ID: downsample_and_recall

Combines read counts (generated by the 01_mpileups workflow) from multiple files into one file.

https://github.com/reddylab/bird-workflow.git

Path: 02_combine_counts/combine_counts.cwl

Branch/Commit ID: main

https://github.com/douglowe/biobb_hpc_cwl_md_list.git

Path: md_launch_mutate.cwl

Branch/Commit ID: main

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

Path: tools/rRNA_selection.cwl

Branch/Commit ID: 3168316