Explore Workflows

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Graph	Name	Retrieved From	View
	blastp_wnode_struct	https://github.com/ncbi/pgap.git Path: task_types/tt_blastp_wnode_struct.cwl Branch/Commit ID: be9d12a3f8e1924183a1dc6a0bda6ada4195ca71
	scatter-wf1_v1_2.cwl	https://github.com/common-workflow-language/cwl-utils.git Path: testdata/scatter-wf1_v1_2.cwl Branch/Commit ID: 0fe3ca65d19ed76b7c5095cf2d915658d26b87fb
	exome alignment with qc, no bqsr, no verify_bam_id	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/alignment_exome_mouse.cwl Branch/Commit ID: 6b365b79675b2aabfb8d5829bb8df0a6e986b037
	scatter-valuefrom-wf1.cwl	https://github.com/common-workflow-language/cwltool.git Path: cwltool/schemas/v1.0/v1.0/scatter-valuefrom-wf1.cwl Branch/Commit ID: 1eb6bfe3c77aebaf69453a669d21ae7a5a78056f
	Filter Protein Alignments	https://github.com/ncbi/pgap.git Path: protein_alignment/wf_align_filter.cwl Branch/Commit ID: be9d12a3f8e1924183a1dc6a0bda6ada4195ca71
	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: 22880e0f41d0420a17d643e8a6e8ee18165bbfbf
	AltAnalyze Build Reference Indices AltAnalyze Build Reference Indices ==================================	https://github.com/datirium/workflows.git Path: workflows/altanalyze-prepare-genome.cwl Branch/Commit ID: 36fd18f11e939d3908b1eca8d2939402f7a99b0f
	811-12.cwl	https://github.com/common-workflow-language/cwltool.git Path: tests/wf/811-12.cwl Branch/Commit ID: 6c86caa0571fd186d90a6600e0bb405596d4a5e0
	trim-rnaseq-pe.cwl Runs RNA-Seq BioWardrobe basic analysis with pair-end data file.	https://github.com/Barski-lab/workflows.git Path: workflows/trim-rnaseq-pe.cwl Branch/Commit ID: c82a2e766abba032f0bbe2aa76e0176e69064569
	record-output-wf_v1_2.cwl	https://github.com/common-workflow-language/cwl-utils.git Path: testdata/record-output-wf_v1_2.cwl Branch/Commit ID: 0fe3ca65d19ed76b7c5095cf2d915658d26b87fb