Explore Workflows

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

Graph Name Retrieved From View
workflow graph format_rrnas_from_seq_entry

https://github.com/ncbi/pgap.git

Path: task_types/tt_format_rrnas_from_seq_entry.cwl

Branch/Commit ID: 7e875f77b615b4f7ebfb23a1da30eb216cc52919
workflow graph taxonomy_check_16S

https://github.com/ncbi/pgap.git

Path: task_types/tt_taxonomy_check_16S.cwl

Branch/Commit ID: 8a8fffb78b1e327ba0da51840ac8acc0c218d611
workflow graph tt_blastn_wnode

https://github.com/ncbi/pgap.git

Path: task_types/tt_blastn_wnode.cwl

Branch/Commit ID: 8a8fffb78b1e327ba0da51840ac8acc0c218d611
workflow graph allele-process-strain.cwl

https://github.com/datirium/workflows.git

Path: subworkflows/allele-process-strain.cwl

Branch/Commit ID: cb5e5b8563be4977e9f2babc14fe084faa234847
workflow graph WES Preprocessing

Whole Exome Sequence analysis Preprocessing

https://github.com/Duke-GCB/bespin-cwl.git

Path: workflows/exomeseq-preprocessing.cwl

Branch/Commit ID: 66b46c15d266fdf6a1faabd8d2f1b257f3438efc
workflow graph merge and annotate svs with population allele freq and vep

https://github.com/genome/analysis-workflows.git

Path: definitions/subworkflows/merge_svs.cwl

Branch/Commit ID: d2c2f2eb846ae2e9cdcab46e3bb88e42126cb3f5
workflow graph Scattered variant calling workflow

https://github.com/arvados/arvados-tutorial.git

Path: WGS-processing/cwl/helper/scatter-gatk-wf-with-interval.cwl

Branch/Commit ID: 2691061efa8341166ad6518688e5e6c0fb9a8fbf
workflow graph allele-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/Barski-lab/workflows.git

Path: subworkflows/allele-alignreads-se-pe.cwl

Branch/Commit ID: 915ea871cc28f7b666a4d7b476fdaa7b454ce7c3
workflow graph bam-bedgraph-bigwig.cwl

Workflow converts input BAM file into bigWig and bedGraph files

https://github.com/datirium/workflows.git

Path: subworkflows/bam-bedgraph-bigwig.cwl

Branch/Commit ID: 4106b7dc96e968db291b7a61ecd1641aa3b3dd6d
workflow graph varscan somatic workflow

https://github.com/genome/analysis-workflows.git

Path: definitions/subworkflows/varscan.cwl

Branch/Commit ID: 0d2f354af9192a56af258a7d2426c7c160f4ec1a