Explore Workflows

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

Graph Name Retrieved From View
workflow graph NonSpliced RNAseq workflow

Workflow for NonSpliced RNAseq data alignment with multiple aligners. Steps: - workflow_illumina_quality.cwl: - FastQC (control) - fastp (trimming) - bowtie2 (read mapping) - sam_to_sorted-bam - featurecounts (transcript read counts) - kallisto (transcript [pseudo]counts)

https://git.wageningenur.nl/unlock/cwl.git

Path: cwl/workflows/workflow_RNAseq_NonSpliced.cwl

Branch/Commit ID: b9097b82e6ab6f2c9496013ce4dd6877092956a0
workflow graph env-wf3.cwl

https://github.com/common-workflow-language/cwltool.git

Path: cwltool/schemas/v1.0/v1.0/env-wf3.cwl

Branch/Commit ID: cb81b22abc52838823da9945f04d06739ab32fda
workflow graph g_vc.cwl

https://github.com/sylviaJian/test_pipelines.git

Path: g_vc.cwl

Branch/Commit ID: ca65af4457be51bcb40bea34fb99a8bb2d339d9c
workflow graph EMG pipeline v3.0 (single end version)

https://github.com/ProteinsWebTeam/ebi-metagenomics-cwl.git

Path: workflows/emg-pipeline-v3.cwl

Branch/Commit ID: 0cf06f13527b380d21d0f335aaea3e564094ed8f
workflow graph inp_update_wf.cwl

https://github.com/common-workflow-language/cwl-v1.2.git

Path: tests/inp_update_wf.cwl

Branch/Commit ID: 5f27e234b4ca88ed1280dedf9e3391a01de12912
workflow graph wf_trim_and_map_pe.cwl

This workflow takes in appropriate trimming params and demultiplexed reads, and performs the following steps in order: trimx1, trimx2, fastq-sort, filter repeat elements, fastq-sort, genomic mapping, sort alignment, index alignment, namesort, PCR dedup, sort alignment, index alignment

https://github.com/YeoLab/eclip.git

Path: cwl/wf_trim_and_map_pe.cwl

Branch/Commit ID: c0fffc4979a92371dc0667a03e3d957bf7f77600
workflow graph Functional analyis of sequences that match the 16S SSU

https://github.com/ProteinsWebTeam/ebi-metagenomics-cwl.git

Path: workflows/16S_taxonomic_analysis.cwl

Branch/Commit ID: 583307878ab83c5845c897f03db920ae8e1929e2
workflow graph Workflow to create a FASTA file for the tagset

https://github.com/curoverse/l7g.git

Path: cwl-version/tagset/l7g-tagset.cwl

Branch/Commit ID: cdfe9178ad4e481d2391cd2da74b82d66a61b0bb
workflow graph wf_clipseqcore_se_1barcode.cwl

https://github.com/YeoLab/eclip.git

Path: cwl/wf_clipseqcore_se_1barcode.cwl

Branch/Commit ID: c0fffc4979a92371dc0667a03e3d957bf7f77600
workflow graph wf_clipseqcore_pe_1barcode.cwl

Workflow for handling reads containing one barcode. Returns the bam file containing read2 only. Notes: runs the following steps: - demultiplex - trimfirst_file2string - trimagain_file2string - b1_trim_and_map - view_r2 - index_r2_bam - make_bigwigs

https://github.com/YeoLab/eclip.git

Path: cwl/wf_clipseqcore_pe_1barcode.cwl

Branch/Commit ID: c0fffc4979a92371dc0667a03e3d957bf7f77600