Explore Workflows

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

Graph Name Retrieved From View
workflow graph indices-header.cwl

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

Path: metadata/indices-header.cwl

Branch/Commit ID: e846c74478ca8bf610fefc4b0ee1b3ecc7a5ccd1
workflow graph gcaccess_from_list

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

Path: task_types/tt_gcaccess_from_list.cwl

Branch/Commit ID: 92118627c800e4addb7e29b9dabcca073a5bae71
workflow graph LBA_target.cwl

https://git.astron.nl/RD/LINC.git

Path: workflows/LBA_target.cwl

Branch/Commit ID: 035f66ec0f260628424c9621aed97f7cbf35e737
workflow graph LBA_calibrator.cwl

https://git.astron.nl/RD/LINC.git

Path: workflows/LBA_calibrator.cwl

Branch/Commit ID: 035f66ec0f260628424c9621aed97f7cbf35e737
workflow graph Pipeline for evaluating differential expression of genes across datasets

https://github.com/hubmapconsortium/rna-data-products.git

Path: pipeline.cwl

Branch/Commit ID: a1113965eda85c333c7ba8dc280737ab552c201c
workflow graph kf-cram2gvcf-custom.cwl

https://github.com/cr-ste-justine/chujs-alignment-workflow.git

Path: workflows/kf-cram2gvcf-custom.cwl

Branch/Commit ID: 8607fc514b40af405b22351e1af43728f1391ea4
workflow graph SetMirrorPanelRandomReflection

Derive characteristic photon random reflection angle from mirror panel optical point-spread function measurements.

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

Path: workflows/SetMirrorPanelRandomReflection.cwl

Branch/Commit ID: bf4d4a44a543bcc04f4508ce020751c71550acf5
workflow graph count-lines3-wf.cwl

https://github.com/common-workflow-language/cwltool.git

Path: cwltool/schemas/v1.0/v1.0/count-lines3-wf.cwl

Branch/Commit ID: 5ae5798f1c0c8d2178986b77cfd74edff510877a
workflow graph downsample unaligned BAM and align

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

Path: definitions/subworkflows/downsampled_alignment.cwl

Branch/Commit ID: da335d9963418f7bedd84cb2791a0df1b3165ffe
workflow graph Motif Finding with HOMER with random background regions

Motif Finding with HOMER with random background regions --------------------------------------------------- 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. Here is how we generate background for Motifs Analysis ------------------------------------- 1. Take input file with regions in a form of “chr\" “start\" “end\" 2. Sort and remove duplicates from this regions file 3. Extend each region in 20Kb into both directions 4. Merge all overlapped extended regions 5. Subtract not extended regions from the extended ones 6. Randomly distribute not extended regions within the regions that we got as a result of the previous step 7. Get fasta file from these randomly distributed regions (from the previous step). Use it as background 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: bf80c9339d81a78aefb8de661bff998ed86e836e