Explore Workflows
View already parsed workflows here or click here to add your own
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Unaligned BAM to BQSR and VCF
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https://github.com/fgomez02/analysis-workflows.git
Path: definitions/subworkflows/bam_to_bqsr_no_dup_marking.cwl Branch/Commit ID: No_filters_detect_variants |
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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: master |
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fasta2taxa-plot
Input is a fasta file with n>1 samples, with sample id as sequence identifier prefix, and a sample id file. The workflow calls open otus and assigns taxa using greengenes. The output are taxa plots. |
https://github.com/MG-RAST/qiime-pipeline.git
Path: CWL/Workflows/qiime/cluster2plot.cwl Branch/Commit ID: master |
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Prepare user input
Prepare user input for NCBI-PGAP pipeline |
https://github.com/ncbi/pgap.git
Path: prepare_user_input2.cwl Branch/Commit ID: 61eaea2f746c8a1fc2a2b731056b068e28ca4e20 |
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count-lines11-null-step-wf-noET.cwl
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https://github.com/common-workflow-language/cwl-v1.1.git
Path: tests/count-lines11-null-step-wf-noET.cwl Branch/Commit ID: master |
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pass-unconnected.cwl
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https://github.com/common-workflow-language/cwl-v1.1.git
Path: tests/pass-unconnected.cwl Branch/Commit ID: main |
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dynresreq-workflow-stepdefault.cwl
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https://github.com/common-workflow-language/cwl-v1.1.git
Path: tests/dynresreq-workflow-stepdefault.cwl Branch/Commit ID: master |
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Create Genomic Collection for Bacterial Pipeline
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https://github.com/ncbi/pgap.git
Path: genomic_source/wf_genomic_source.cwl Branch/Commit ID: master |
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bwa_mem
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https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git
Path: structuralvariants/cwl/subworkflows/bwa_mem.cwl Branch/Commit ID: 1.0.5 |
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EMG assembly for paired end Illumina
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https://github.com/EBI-Metagenomics/ebi-metagenomics-cwl.git
Path: workflows/emg-assembly.cwl Branch/Commit ID: 3f85843 |
