Explore Workflows

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

Path: tools/rRNA_selection.cwl

Branch/Commit ID: 0cf06f1

https://github.com/ebi-wp/webservice-cwl.git

Path: workflows/workflow-blast-clustalo-phylogeny.cwl

Branch/Commit ID: master

CNV CODEX calling

https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git

Path: structuralvariants/cwl/subworkflows/cnv_codex.cwl

Branch/Commit ID: 1.1.3

run 2-pass dedup: algo LocusCollector + algo Dedup sequentially in distributed mode

https://github.com/Sentieon/Sentieon-cwl.git

Path: stage/dedup-2-pass-distr.cwl

Branch/Commit ID: master

Author: AMBARISH KUMAR er.ambarish@gmail.com & ambari73_sit@jnu.ac.in This is a proposed standard operating procedure for genomic variant detection using GATK4. It is hoped to be effective and useful for getting SARS-CoV-2 genome variants. It uses Illumina RNASEQ reads and genome sequence.

https://github.com/leipzig/2020-covid-19-bh.git

Path: Ambarish_Kumar_SOP/CWL/Ambarish_Kumar_SOP-GATK-SAR-CoV-2.cwl

Branch/Commit ID: main

https://github.com/bcbio/bcbio_validation_workflows.git

Path: somatic-lowfreq/pisces-ras-workflow/wf-alignment.cwl

Branch/Commit ID: master

https://github.com/mskcc/roslin-variant.git

Path: setup/cwl/module-1.scatter.chunk.cwl

Branch/Commit ID: 2.4.x

ATAC-seq pipeline - reads: PE

https://github.com/Duke-GCB/GGR-cwl.git

Path: v1.0/ATAC-seq_pipeline/pipeline-pe.cwl

Branch/Commit ID: master

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

Path: vecscreen/bacterial_screening.cwl

Branch/Commit ID: master

https://github.com/mskcc/Innovation-Pipeline.git

Path: workflows/waltz/waltz-workflow.cwl

Branch/Commit ID: master