Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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Run genomic CMsearch (Rfam rRNA)
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https://github.com/ncbi/pgap.git
Path: bacterial_ncrna/wf_gcmsearch.cwl Branch/Commit ID: 4b73bfeb967ee9f57a0410276f7c39e784f0846f |
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gp_makeblastdb
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https://github.com/ncbi/pgap.git
Path: progs/gp_makeblastdb.cwl Branch/Commit ID: 4b73bfeb967ee9f57a0410276f7c39e784f0846f |
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Non-Coding Bacterial Genes
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https://github.com/ncbi/pgap.git
Path: bacterial_noncoding/wf_bacterial_noncoding.cwl Branch/Commit ID: 4b73bfeb967ee9f57a0410276f7c39e784f0846f |
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Bacterial Annotation, pass 2, blastp-based functional annotation (first pass)
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https://github.com/ncbi/pgap.git
Path: bacterial_annot/wf_bacterial_annot_pass2.cwl Branch/Commit ID: 4b73bfeb967ee9f57a0410276f7c39e784f0846f |
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Get Proteins
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https://github.com/ncbi/pgap.git
Path: wf_bacterial_prot_src.cwl Branch/Commit ID: 4b73bfeb967ee9f57a0410276f7c39e784f0846f |
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Apply filters to VCF file
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/filter_vcf_mouse.cwl Branch/Commit ID: 789267ce0e3fed674ea5212a562315218fcf1bfc |
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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: 9ee330737f4603e4e959ffe786fbb2046db70a00 |
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Detect Variants workflow
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https://github.com/genome/analysis-workflows.git
Path: definitions/pipelines/detect_variants_mouse.cwl Branch/Commit ID: 789267ce0e3fed674ea5212a562315218fcf1bfc |
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exome alignment and somatic variant detection for cle purpose
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https://github.com/tmooney/cancer-genomics-workflow.git
Path: definitions/pipelines/somatic_exome_cle.cwl Branch/Commit ID: 0db1a5f1ceedd4416ac550787c27b99c87dbe985 |
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workflow.cwl
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https://github.com/nal-i5k/organism_onboarding.git
Path: flow_create_genomics-workspace_yml/flow_create_yml/workflow.cwl Branch/Commit ID: add45db6f08de518e224bdc3c04094fd69cad2d2 |
