Explore Workflows

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

Graph	Name	Retrieved From	View
	iwdr_with_nested_dirs.cwl	https://github.com/common-workflow-language/cwltool.git Path: cwltool/schemas/v1.0/v1.0/iwdr_with_nested_dirs.cwl Branch/Commit ID: 7bfd77118cdc80dd7150115dd7a1a7ee6046f6fe
	1st-workflow.cwl	https://github.com/common-workflow-language/cwltool.git Path: tests/wf/1st-workflow.cwl Branch/Commit ID: 10492acee927c177933160f6ad67085f9112b0d1
	mut3.cwl	https://github.com/common-workflow-language/cwltool.git Path: tests/wf/mut3.cwl Branch/Commit ID: 596aab620489cd2611f4bc1d9a4fc914ddf34514
	umi molecular alignment workflow	https://github.com/genome/analysis-workflows.git Path: definitions/subworkflows/molecular_alignment.cwl Branch/Commit ID: aba52e94b6d7470132d3c092c26d67e29d615300
	GAT - Genomic Association Tester GAT: Genomic Association Tester ============================================== A common question in genomic analysis is whether two sets of genomic intervals overlap significantly. This question arises, for example, in the interpretation of ChIP-Seq or RNA-Seq data. The Genomic Association Tester (GAT) is a tool for computing the significance of overlap between multiple sets of genomic intervals. GAT estimates significance based on simulation. Gat implemements a sampling algorithm. Given a chromosome (workspace) and segments of interest, for example from a ChIP-Seq experiment, gat creates randomized version of the segments of interest falling into the workspace. These sampled segments are then compared to existing genomic annotations. The sampling method is conceptually simple. Randomized samples of the segments of interest are created in a two-step procedure. Firstly, a segment size is selected from to same size distribution as the original segments of interest. Secondly, a random position is assigned to the segment. The sampling stops when exactly the same number of nucleotides have been sampled. To improve the speed of sampling, segment overlap is not resolved until the very end of the sampling procedure. Conflicts are then resolved by randomly removing and re-sampling segments until a covering set has been achieved. Because the size of randomized segments is derived from the observed segment size distribution of the segments of interest, the actual segment sizes in the sampled segments are usually not exactly identical to the ones in the segments of interest. This is in contrast to a sampling method that permutes segment positions within the workspace.	https://github.com/datirium/workflows.git Path: workflows/gat-run.cwl Branch/Commit ID: cbefc215d8286447620664fb47076ba5d81aa47f
	ani_top_n	https://github.com/ncbi/pgap.git Path: task_types/tt_ani_top_n.cwl Branch/Commit ID: 1c1f5aa0b0dfe5b07beb8ccb0c0e3c073a9fb592
	Nested workflow example	https://github.com/common-workflow-language/cwltool.git Path: tests/wf/nested.cwl Branch/Commit ID: 4fd5ca5a927594c361a9320d5331b326d06cecd3
	trim-rnaseq-pe-dutp.cwl Runs RNA-Seq BioWardrobe basic analysis with strand specific pair-end data file.	https://github.com/Barski-lab/workflows.git Path: workflows/trim-rnaseq-pe-dutp.cwl Branch/Commit ID: 568da91bb1c6182ba4f146e2a729cac1c3d8783c
	Hello World Outputs a message using echo	https://github.com/common-workflow-language/cwltool.git Path: tests/wf/hello-workflow.cwl Branch/Commit ID: cd1ba3df3745fba4b635f05c67ebeaf3b8a9f4ec
	Cell Ranger ARC Count Gene Expression + ATAC Cell Ranger ARC Count Gene Expression + ATAC ============================================	https://github.com/datirium/workflows.git Path: workflows/cellranger-arc-count.cwl Branch/Commit ID: bf80c9339d81a78aefb8de661bff998ed86e836e