Explore Workflows
View already parsed workflows here or click here to add your own
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env-wf2.cwl
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https://github.com/common-workflow-language/cwltool.git
Path: cwltool/schemas/v1.0/v1.0/env-wf2.cwl Branch/Commit ID: e9c83739a93fa0b18f8dea2f98b632a9e32725c9 |
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umi molecular alignment fastq workflow
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https://github.com/genome/analysis-workflows.git
Path: definitions/pipelines/umi_molecular_alignment.cwl Branch/Commit ID: a23f42ef49c10a588fd35a3afaad5de03e253533 |
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trim-rnaseq-se-dutp.cwl
Runs RNA-Seq dUTP BioWardrobe basic analysis with strand specific single-end data file. |
https://github.com/Barski-lab/workflows.git
Path: workflows/trim-rnaseq-se-dutp.cwl Branch/Commit ID: ea2a2ab57710fcf067f67305f3dd6ad29094da1a |
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chipseq-pe.cwl
ChIP-Seq basic analysis workflow for a paired-end experiment. |
https://github.com/datirium/workflows.git
Path: workflows/chipseq-pe.cwl Branch/Commit ID: a9551ece898f619167db58e4b74a6cae2d7f7d13 |
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Feature expression merge - combines feature expression from several experiments
Feature expression merge - combines feature expression from several experiments ========================================================================= Workflows merges RPKM (by default) gene expression from several experiments based on the values from GeneId, Chrom, TxStart, TxEnd and Strand columns (by default). Reported unique columns are renamed based on the experiments names. |
https://github.com/datirium/workflows.git
Path: workflows/feature-merge.cwl Branch/Commit ID: 10ce6e113f749c7bd725e426445220c3bdc5ddf1 |
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fastq_foreign_chromosome_cleanup
This workflow remove foreign chromosome comtamination from blastn TSV files |
https://github.com/ncbi/cwl-ngs-workflows-cbb.git
Path: workflows/Contamination/fastq-foreign-chromosome-cleanup.cwl Branch/Commit ID: 3247592a89deafaa0d9c5910a1cb1d000ef9b098 |
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hmmsearch_wnode and gpx_qdump combined workflow to apply scatter/gather
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https://github.com/ncbi/pgap.git
Path: task_types/tt_hmmsearch_wnode_plus_qdump.cwl Branch/Commit ID: 01a5c0a8834846ce04fed190eec7d1cc39a3df48 |
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SoupX (workflow) - an R package for the estimation and removal of cell free mRNA contamination
Wrapped in a workflow SoupX tool for easy access to Cell Ranger pipeline compressed outputs. |
https://github.com/datirium/workflows.git
Path: tools/soupx-subworkflow.cwl Branch/Commit ID: 5561f7ee11dd74848680351411a19aa87b13d27b |
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heatmap-prepare.cwl
Workflow runs homer-make-tag-directory.cwl tool using scatter for the following inputs - bam_file - fragment_size - total_reads `dotproduct` is used as a `scatterMethod`, so one element will be taken from each array to construct each job: 1) bam_file[0] fragment_size[0] total_reads[0] 2) bam_file[1] fragment_size[1] total_reads[1] ... N) bam_file[N] fragment_size[N] total_reads[N] `bam_file`, `fragment_size` and `total_reads` arrays should have the identical order. |
https://github.com/datirium/workflows.git
Path: tools/heatmap-prepare.cwl Branch/Commit ID: 87f213456b3f966b773d396cce1fe5a272dad858 |
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step-valuefrom2-wf.cwl
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https://github.com/common-workflow-language/cwltool.git
Path: cwltool/schemas/v1.0/v1.0/step-valuefrom2-wf.cwl Branch/Commit ID: 7c7615c44b80f8e76e659433f8c7875603ae0b25 |
