Explore Workflows

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

Graph	Name	Retrieved From	View
	workflow.cwl	https://github.com/nal-i5k/organism_onboarding.git Path: flow_apollo2_data_processing/processing/workflow.cwl Branch/Commit ID: aa375dcaa5ccfbb4e2aa4433d10948c641b044eb
	STAR-RNA-Seq alignment and transcript/gene abundance workflow	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/rnaseq_star_fusion.cwl Branch/Commit ID: fbeea265295ae596d5a3ba563e766be0c4fc26e8
	Nanopore assembly workflow Workflow for sequencing with ONT nanopore, from basecalled reads to (meta)assembly and binning Steps: - Read filtering - Kraken2 (taxonomic classification of FASTQ reads) - Flye (de novo assembly) - Medaka (assembly polishing) - metaQUAST (assembly quality reports) When Illumina reads are provided: - Assembly polishing with Pilon - Metabat2 binning - CheckM - BUSCO - GTDB-Tk	https://git.wur.nl/unlock/cwl.git Path: cwl/workflows/workflow_nanopore_assembly.cwl Branch/Commit ID: d944d61ddc34a5b24ebac6e1701efd6f8fdf54ae
	Non-Coding Bacterial Genes	https://github.com/ncbi/pgap.git Path: bacterial_noncoding/wf_bacterial_noncoding.cwl Branch/Commit ID: 656113dcac0de7cef6cff6c688f61441ee05872a
	bam to trimmed fastqs and biscuit alignments	https://github.com/genome/analysis-workflows.git Path: definitions/subworkflows/bam_to_trimmed_fastq_and_biscuit_alignments.cwl Branch/Commit ID: ef7f3345b352319ec22dffba26c79df033b141f9
	testTimeSIMLR.cwl	https://github.com/Gepiro/rCASC_StreamFlow.git Path: setting/testTimeSIMLR.cwl Branch/Commit ID: 578338a7fb45ce3d2a8da53e09baf46323711624
	Chipseq alignment for nonhuman with qc and creating homer tag directory	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/chipseq_alignment_nonhuman.cwl Branch/Commit ID: 87faba2fff8007ecc95160729b1c7cd0376e46f2
	cache_asnb_entries	https://github.com/ncbi/pgap.git Path: task_types/tt_cache_asnb_entries.cwl Branch/Commit ID: 7ebb8d2757914d16520b00571a281e2ad86a42cf
	steps.cwl	https://github.com/DimitraPanou/scRNAseq-cwl.git Path: steps.cwl Branch/Commit ID: a0809be8a2dda2c053536f7c6fc21193f1fe78f3
	apolloServer-createOrganism-workflow.cwl	https://github.com/NAL-i5K/Organism_Onboarding.git Path: apolloServer-createOrganism-workflow.cwl Branch/Commit ID: aa375dcaa5ccfbb4e2aa4433d10948c641b044eb