Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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scatter-wf3.cwl#main
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https://github.com/common-workflow-language/cwltool.git
Path: cwltool/schemas/v1.0/v1.0/scatter-wf3.cwl Branch/Commit ID: fc6ca8b1498926f705dcfde7ab0a365bd09a9675 Packed ID: main |
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directory.cwl
Inspect provided directory and return filenames. Generate a new directory and return it (including content). |
https://github.com/common-workflow-language/cwltool.git
Path: tests/wf/directory.cwl Branch/Commit ID: 216fbe57afcf67d81c99b49c1aa3aee0844f0a6a |
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Run genomic CMsearch
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https://github.com/ncbi/pgap.git
Path: bacterial_noncoding/wf_gcmsearch.cwl Branch/Commit ID: c062f531bc8373f24ed3271543d4e4e9a13c30dd |
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genomics-workspace-transcript.cwl
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https://github.com/nal-i5k/organism_onboarding.git
Path: flow_genomicsWorkspace/genomics-workspace-transcript.cwl Branch/Commit ID: 87b773804343bf12606f4ee596d7635e9ad20c7a |
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collapsed_fastq_to_bam.cwl
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https://github.com/mskcc/Innovation-Pipeline.git
Path: workflows/marianas/collapsed_fastq_to_bam.cwl Branch/Commit ID: b0f226a9ac5152f3afe0d38c8cd54aa25b8b01cf |
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Bisulfite QC tools
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/bisulfite_qc.cwl Branch/Commit ID: 1249b5d4e23d57ca5e3b8ad6d8e5f10ddb019f68 |
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group-isoforms-batch.cwl
Workflow runs group-isoforms.cwl tool using scatter for isoforms_file input. genes_filename and common_tss_filename inputs are ignored. |
https://github.com/datirium/workflows.git
Path: tools/group-isoforms-batch.cwl Branch/Commit ID: a1f6ca50fcb0881781b3ba0306dd61ebf555eaba |
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allele-vcf-alignreads-se-pe.cwl
Workflow maps FASTQ files from `fastq_files` input into reference genome `reference_star_indices_folder` and insilico generated `insilico_star_indices_folder` genome (concatenated genome for both `strain1` and `strain2` strains). For both genomes STAR is run with `outFilterMultimapNmax` parameter set to 1 to discard all of the multimapped reads. For insilico genome SAM file is generated. Then it's splitted into two SAM files based on strain names and then sorted by coordinates into the BAM format. For reference genome output BAM file from STAR slignment is also coordinate sorted. |
https://github.com/datirium/workflows.git
Path: subworkflows/allele-vcf-alignreads-se-pe.cwl Branch/Commit ID: 94471ee6c01b7bc17102e45e56e7366c2a52acdf |
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preprocess fasta
Remove reads from fasta files based on sequence stats. Return fasta files with reads passed and reads removed. |
https://github.com/MG-RAST/pipeline.git
Path: CWL/Workflows/preprocess-fasta.workflow.cwl Branch/Commit ID: 721aaf285e1848c3c52da38a1fed95192aeff8f4 |
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genomics-workspace-genome.cwl
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https://github.com/nal-i5k/organism_onboarding.git
Path: flow_genomicsWorkspace/genomics-workspace-genome.cwl Branch/Commit ID: 87b773804343bf12606f4ee596d7635e9ad20c7a |
