Explore Workflows

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

Graph Name Retrieved From View
workflow graph kmer_cache_retrieve

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

Path: task_types/tt_kmer_cache_retrieve.cwl

Branch/Commit ID: b174aec5dba5524367061a2c60472c318430f4f5
workflow graph mut3.cwl

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

Path: tests/wf/mut3.cwl

Branch/Commit ID: 886a6ac41c685f20d39e352f9c657e59f3312265
workflow graph step-valuefrom3-wf.cwl

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

Path: tests/step-valuefrom3-wf.cwl

Branch/Commit ID: eb3f25a9e9414a7dba394f7627e02e63d7f1418c
workflow graph count-lines10-wf.cwl

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

Path: tests/count-lines10-wf.cwl

Branch/Commit ID: 31bda22357987171f02ae6513fcc26e011e6afed
workflow graph 811.cwl

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

Path: tests/wf/811.cwl

Branch/Commit ID: 20bec583996f86de518feb51574ff6efc8784f49
workflow graph scatter2.cwl

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

Path: tests/wf/scatter2.cwl

Branch/Commit ID: 20bec583996f86de518feb51574ff6efc8784f49
workflow graph extract_gencoll_ids

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

Path: task_types/tt_extract_gencoll_ids.cwl

Branch/Commit ID: 7e3e1cb249e85285e27ef3ebd4104965f835241d
workflow graph Bacterial Annotation, pass 3, structural annotation, functional annotation: ab initio GeneMark, by WP, by HMM (second pass)

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

Path: bacterial_annot/wf_bacterial_annot_pass3.cwl

Branch/Commit ID: 13b411d94a568e52797ba936732dc65f1a91bd41
workflow graph count-lines1-wf.cwl

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

Path: tests/wf/count-lines1-wf.cwl

Branch/Commit ID: 2a922ab11b2f9c21ae4955c74563543b87717b93
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: 69a15832fae36a128b6cbf74187dac0dd9cfae27