Explore Workflows

View already parsed workflows here or click here to add your own

Graph Name Retrieved From View
workflow graph contig LCA

create LCA consistant across input contigs contigs order of precedence - rRNA, single copy gene, LCA of genes

https://github.com/MG-RAST/pipeline.git

Path: CWL/Workflows/contig-lca.workflow.cwl

Branch/Commit ID: f5839797da8209a9d3e441023f88130219751020
workflow graph screen out taxa

Remove sequences which align against a reference set using bowtie2. The references are preformatted (index files)

 https://github.com/MG-RAST/pipeline.git

Path: CWL/Workflows/organism-screening.workflow.cwl

Branch/Commit ID: f5839797da8209a9d3e441023f88130219751020
workflow graph abundance

abundace profiles from annotated files, for protein and/or rna

 https://github.com/MG-RAST/pipeline.git

Path: CWL/Workflows/abundance-clca.workflow.cwl

Branch/Commit ID: f5839797da8209a9d3e441023f88130219751020
workflow graph WGS and MT analysis for fastq files

rna / protein - qc, preprocess, filter, annotation, index, abundance

 https://github.com/MG-RAST/pipeline.git

Path: CWL/Workflows/wgs-fastq.workflow.cwl

Branch/Commit ID: f5839797da8209a9d3e441023f88130219751020
workflow graph Quality assessment, amplicon classification

Workflow for quality assessment of paired reads and classification using NGTax 2.0. In addition files are exported to their respective subfolders for easier data management in a later stage. Steps: - FastQC (read quality control) - NGTax 2.0 - Export module

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

Path: cwl/workflows/workflow_ngtax.cwl

Branch/Commit ID: 2242521957bb07fc589d6bb07046f6a166bc975a
workflow graph ani_top_n

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

Path: task_types/tt_ani_top_n.cwl

Branch/Commit ID: e71779665f42fcf34601b0f65e030bb0dd47fa79
workflow graph CODEX analysis pipeline using Cytokit

https://github.com/hubmapconsortium/codex-pipeline.git

Path: steps/ometiff_second_stitching.cwl

Branch/Commit ID: 1c7394266f64fdf88a67d8a6507644543f489c17
workflow graph umi per-lane alignment subworkflow

https://github.com/genome/analysis-workflows.git

Path: definitions/subworkflows/umi_alignment.cwl

Branch/Commit ID: 051074fce4afd9732ef34db9dd43d3a1d8e979d6
workflow graph downsample unaligned BAM and align

https://github.com/genome/analysis-workflows.git

Path: definitions/subworkflows/downsampled_alignment.cwl

Branch/Commit ID: 051074fce4afd9732ef34db9dd43d3a1d8e979d6
workflow graph metabarcode (gene amplicon) analysis for fastq files

protein - qc, preprocess, annotation, index, abundance

 https://github.com/MG-RAST/pipeline.git

Path: CWL/Workflows/metabarcode-fasta.workflow.cwl

Branch/Commit ID: f5839797da8209a9d3e441023f88130219751020