Explore Workflows

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

Path: workflows/trim_and_reformat_reads.cwl

Branch/Commit ID: master

https://github.com/GeorgeAlehandro/cwl_1_11.git

Path: workflow1_11.cwl

Branch/Commit ID: main

Packed ID: VDJ_Assemble_and_Annotate_Contigs_TCR.cwl

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

Path: unaligned_bam_to_bqsr/downsample_workflow.cwl

Branch/Commit ID: toil_compatibility

ATAC-seq pipeline - reads: PE

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

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

Branch/Commit ID: master

Workflow runs group-isoforms.cwl tool using scatter for isoforms_file input. genes_filename and common_tss_filename inputs are ignored.

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

Path: tools/group-isoforms-batch.cwl

Branch/Commit ID: master

https://github.com/cancerit/workflow-seq-import.git

Path: cwls/chksum_seqval_wf_paired_fq.cwl

Branch/Commit ID: 0.5.0_test

Reverse the lines in a document, then sort those lines.

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

Path: tests/wf/revsort_step_bad_schema.cwl

Branch/Commit ID: main

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

Path: tools/tRNA_selection.cwl

Branch/Commit ID: 5833078

Workflow for Metagenomics from raw reads to annotated bins. Steps: - workflow_illumina_quality.cwl: - FastQC (control) - fastp (quality trimming) - kraken2 (taxonomy) - bbmap contamination filter - SPAdes (Assembly) - QUAST (Assembly quality report) - BBmap (Read mapping to assembly) - Contig binning (OPTIONAL)

https://git.wur.nl/unlock/cwl.git

Path: cwl/workflows/workflow_metagenomics_assembly.cwl

Branch/Commit ID: master

RNA-seq 04 quantification

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

Path: v1.0/RNA-seq_pipeline/04-quantification-se-revstranded.cwl

Branch/Commit ID: master