Explore Workflows

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

Graph Name Retrieved From View
workflow graph kmer_cache_store

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

Path: task_types/tt_kmer_cache_store.cwl

Branch/Commit ID: 5461e63dc4714bb81e1c9f58e436c8465107a199
workflow graph Unaligned to aligned BAM

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

Path: definitions/subworkflows/align.cwl

Branch/Commit ID: 0d2f354af9192a56af258a7d2426c7c160f4ec1a
workflow graph facets-suite-workflow.cwl

Workflow for running the facets suite workflow on a single tumor normal pair Includes handling of errors in case execution fails for the sample pair

https://github.com/mskcc/pluto-cwl.git

Path: cwl/facets-suite-workflow.cwl

Branch/Commit ID: 9f7b5b5f985727a2df34ae86586c296ce757004c
workflow graph blastp_wnode_naming

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

Path: task_types/tt_blastp_wnode_naming.cwl

Branch/Commit ID: a432f942e325da401488be454fa0f1100d9e6189
workflow graph kmer_cache_retrieve

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

Path: task_types/tt_kmer_cache_retrieve.cwl

Branch/Commit ID: cec32f5b60c1d048257e3c3daed6912d5d2a054e
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