Explore Workflows

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

Graph Name Retrieved From View
workflow graph download_check.cwl

https://github.com/uc-cdis/genomel_pipelines.git

Path: genomel/cwl/workflows/utils/download_check.cwl

Branch/Commit ID: c661469505c606e1353f23c21a6654724a9d8d63
workflow graph Build Bowtie indices

Workflow runs [Bowtie](http://bowtie-bio.sourceforge.net/tutorial.shtml) v1.2.0 (12/30/2016) to build indices for reference genome provided in a single FASTA file as fasta_file input. Generated indices are saved in a folder with the name that corresponds to the input genome

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

Path: workflows/bowtie-index.cwl

Branch/Commit ID: 46a077b51619c6a14f85e0aa5260ae8a04426fab
workflow graph Unaligned BAM to BQSR

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

Path: definitions/subworkflows/bam_to_bqsr.cwl

Branch/Commit ID: e8b7759826df40b8bb821b40b15aea960a4951c4
workflow graph kmer_cache_store

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

Path: task_types/tt_kmer_cache_store.cwl

Branch/Commit ID: 1b9094d70f620bb2e51072dd2150150aa4927439
workflow graph trnascan_wnode and gpx_qdump combined

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

Path: bacterial_trna/wf_scan_and_dump.cwl

Branch/Commit ID: e2a6cbcc36212433d8fbc804919442787a5e2a49
workflow graph revsort-single-no-docker.cwl

Reverse the lines in a document, then sort those lines.

 https://github.com/Duke-GCB/calrissian.git

Path: input-data/revsort-single-no-docker.cwl

Branch/Commit ID: 68362997c0f3d73dc753f08696148d1c5de70017
workflow graph Run pindel on provided region

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

Path: definitions/subworkflows/pindel_region.cwl

Branch/Commit ID: 7638b3075863ae8172f4adaec82fb2eb8e80d3d5
workflow graph alignment_bwa_mem_prod.cwl

https://github.com/uc-cdis/genomel_pipelines.git

Path: genomel/cwl/workflows/harmonization/alignment_bwa_mem_prod.cwl

Branch/Commit ID: c661469505c606e1353f23c21a6654724a9d8d63
workflow graph Running cellranger count and lineage inference

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

Path: definitions/subworkflows/single_cell_rnaseq.cwl

Branch/Commit ID: c23dc7f113ca0b0a3127a5d6c696e98d4799460c
workflow graph 03-map-pe-blacklist-removal.cwl

ATAC-seq 03 mapping - reads: PE - blacklist removal

 https://github.com/alexbarrera/GGR-cwl.git

Path: v1.0/ATAC-seq_pipeline/03-map-pe-blacklist-removal.cwl

Branch/Commit ID: 1a0dd34d59ec983d1f7ad77bff35da2f016e3134