Explore Workflows

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Graph	Name	Retrieved From	View
	PGAP Pipeline PGAP pipeline for external usage, powered via containers	https://github.com/ncbi/pgap.git Path: wf_common.cwl Branch/Commit ID: 7cee09fb3e33c851e4e1dfc965c558b82290a785
	exome alignment and somatic variant detection for cle purpose	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/somatic_exome_cle.cwl Branch/Commit ID: 3b6d0475c80f5e452793a46a38ee188742b86595
	Prepare user input Prepare user input for NCBI-PGAP pipeline	https://github.com/ncbi/pgap.git Path: prepare_user_input2.cwl Branch/Commit ID: 7cee09fb3e33c851e4e1dfc965c558b82290a785
	Filter single sample sv vcf from paired read callers(Manta/Smoove)	https://github.com/genome/analysis-workflows.git Path: definitions/subworkflows/sv_paired_read_caller_filter.cwl Branch/Commit ID: ece70ac30cd87100a70f7dc64d08fa72724e9416
	Motif Finding with HOMER from FASTA files Motif Finding with HOMER from FASTA files --------------------------------------------------- HOMER contains a novel motif discovery algorithm that was designed for regulatory element analysis in genomics applications (DNA only, no protein). It is a differential motif discovery algorithm, which means that it takes two sets of sequences and tries to identify the regulatory elements that are specifically enriched in on set relative to the other. It uses ZOOPS scoring (zero or one occurrence per sequence) coupled with the hypergeometric enrichment calculations (or binomial) to determine motif enrichment. HOMER also tries its best to account for sequenced bias in the dataset. It was designed with ChIP-Seq and promoter analysis in mind, but can be applied to pretty much any nucleic acids motif finding problem. For more information please refer to: ------------------------------------- [Official documentation](http://homer.ucsd.edu/homer/motif/)	https://github.com/datirium/workflows.git Path: workflows/homer-motif-analysis.cwl Branch/Commit ID: 17a4a68b20e0af656e09714c1f39fe761b518686
	Subworkflow to allow calling different SV callers which require bam files as inputs	https://github.com/genome/analysis-workflows.git Path: definitions/subworkflows/single_sample_sv_callers.cwl Branch/Commit ID: ece70ac30cd87100a70f7dc64d08fa72724e9416
	cache_asnb_entries	https://github.com/ncbi/pgap.git Path: task_types/tt_cache_asnb_entries.cwl Branch/Commit ID: 0514ffe248dd11068a3f2268bc67b6ce5ab051d2
	cluster_blastp_wnode and gpx_qdump combined	https://github.com/ncbi/pgap.git Path: task_types/tt_cluster_and_qdump.cwl Branch/Commit ID: 0514ffe248dd11068a3f2268bc67b6ce5ab051d2
	Alignment without BQSR	https://github.com/genome/analysis-workflows.git Path: definitions/subworkflows/sequence_to_bqsr_nonhuman.cwl Branch/Commit ID: ece70ac30cd87100a70f7dc64d08fa72724e9416
	align_sort_sa	https://github.com/ncbi/pgap.git Path: task_types/tt_align_sort_sa.cwl Branch/Commit ID: f58bb8121e49a72cf7419a4a38c08f01b931dd37