Explore Workflows

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

Graph Name Retrieved From View
workflow graph genome-kallisto-index.cwl

Generates a FASTA file with the DNA sequences for all transcripts in a GFF file and builds kallisto index

https://github.com/Barski-lab/workflows.git

Path: tools/genome-kallisto-index.cwl

Branch/Commit ID: 5a92b026bd62fe1597de940088e8adeef6939d5a
workflow graph step_valuefrom5_wf_with_id_v1_2.cwl

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

Path: testdata/step_valuefrom5_wf_with_id_v1_2.cwl

Branch/Commit ID: b926e330eba795f3acc1f71fd0645e75f925a2da
workflow graph spurious_annot pass2

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

Path: spurious_annot/wf_spurious_annot_pass2.cwl

Branch/Commit ID: a1f39f21670be28427ceb91ceaeb9339545c18fc
workflow graph Subworkflow to allow calling cnvkit with cram instead of bam files

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

Path: definitions/subworkflows/cram_to_cnvkit.cwl

Branch/Commit ID: 60d8a9e6c5f571ec9b37f10290a1f4613013f3e1
workflow graph grepsort workflow

a workflow that performs grep followed by sort

 https://github.com/ResearchObject/runcrate.git

Path: tests/data/grepsort-run-1/snapshot/grepsort.cwl

Branch/Commit ID: e0da7976dfc711376d84d6dcb78e48a98c306814
workflow graph env-wf1.cwl

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

Path: tests/env-wf1.cwl

Branch/Commit ID: ad91c844b5adfef514c059af364e20afc935e598
workflow graph FASTQ Vector Removal

This workflow convert fastq to multiple fasta files

 https://github.com/ncbi/cwl-ngs-workflows-cbb.git

Path: workflows/File-formats/fastq-to-splitted-fasta.cwl

Branch/Commit ID: b5a440939ac6022ee81aeeb0dd7daf3983228a61
workflow graph 811-12.cwl

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

Path: tests/wf/811-12.cwl

Branch/Commit ID: 256306a5da1eb0a8391d5f6734e7baae96922079
workflow graph samples_fillout_index_batch_workflow.cwl

Wrapper to run bam indexing on all bams before submitting for samples fillout Also includes steps to pre-filter some maf input files NOTE: each sample in a sample_group must have a .bam file, and there must be a minumum of 1 .maf file amoungst samples in the same sample_group this means that for each sample in the sample_group, a .bam is required but a .maf is optional as long as one sample in the group has a .maf this also means that singleton sample groups, or a sample group with only one sample, MUST include a .maf file; singletons cannot lack a .maf NOTE: all .maf files must be valid, at a minimum they must have a header and at least one variant if a sample has no variants in its .maf file, or has an empty .maf file, then it should NOT have a maf_file entry associated with it

https://github.com/mskcc/pluto-cwl.git

Path: cwl/samples_fillout_index_batch_workflow.cwl

Branch/Commit ID: dbff0c5ae06a8b21ec70bc8279f32bce151cbfc2
workflow graph assm_assm_blastn_wnode

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

Path: task_types/tt_assm_assm_blastn_wnode.cwl

Branch/Commit ID: 5d5c4b4ed6d6de42eda2c68aefcf738c201517fb