Explore Workflows

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

Graph Name Retrieved From View
workflow graph kfdrc_alignment_pipeline.cwl

https://github.com/kids-first/kf-alignment-workflow.git

Path: dev/pilot-run/worklflows/kfdrc_alignment_pipeline.cwl

Branch/Commit ID: 4b8dc1e00d3dd082ee31629afdeda6103f75dc3a
workflow graph fasta2taxa-plot

Input is a fasta file with n>1 samples, with sample id as sequence identifier prefix, and a sample id file. The workflow calls open otus and assigns taxa using greengenes. The output are taxa plots.

https://github.com/MG-RAST/qiime-pipeline.git

Path: CWL/Workflows/qiime/join-reads2plot.cwl

Branch/Commit ID: b8c2be41cd8805023a0d9e5916042b2557205d03
workflow graph THOR - differential peak calling of ChIP-seq signals with replicates

What is THOR? -------------- THOR is an HMM-based approach to detect and analyze differential peaks in two sets of ChIP-seq data from distinct biological conditions with replicates. THOR performs genomic signal processing, peak calling and p-value calculation in an integrated framework. For more information please refer to: ------------------------------------- Allhoff, M., Sere K., Freitas, J., Zenke, M., Costa, I.G. (2016), Differential Peak Calling of ChIP-seq Signals with Replicates with THOR, Nucleic Acids Research, epub gkw680.

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

Path: workflows/rgt-thor.cwl

Branch/Commit ID: 261c0232a7a40880f2480b811ed2d7e89c463869
workflow graph kfdrc_RNAseq_workflow.cwl

https://github.com/kids-first/kf-rnaseq-workflow.git

Path: workflow/kfdrc_RNAseq_workflow.cwl

Branch/Commit ID: 65161d6565c436a7b1e0b3be56efb433a994ed9d
workflow graph variant-calling-pair.cwl

https://github.com/mskcc/argos-cwl.git

Path: modules/pair/variant-calling-pair.cwl

Branch/Commit ID: 0b9721d7d512352c7f80b27f42b3192a585ed5f6
workflow graph mut3.cwl

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

Path: tests/wf/mut3.cwl

Branch/Commit ID: 1b5633876aabd4cb57ef3f1fe91c853f3ee82e46
workflow graph exome alignment with qc, no bqsr, no verify_bam_id

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

Path: definitions/pipelines/exome_alignment_mouse.cwl

Branch/Commit ID: d2c2f2eb846ae2e9cdcab46e3bb88e42126cb3f5
workflow graph 811.cwl

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

Path: tests/wf/811.cwl

Branch/Commit ID: 1b5633876aabd4cb57ef3f1fe91c853f3ee82e46
workflow graph indices-header.cwl

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

Path: metadata/indices-header.cwl

Branch/Commit ID: 69643d8c15f5357a320aa7e2f6adb2e71302fd20
workflow graph Cell Ranger Build V(D)J Reference Indices

Cell Ranger Build V(D)J Reference Indices Build a Cell Ranger V(D)J-compatible reference folder from a user-supplied genome FASTA and gene GTF files.

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

Path: workflows/cellranger-mkvdjref.cwl

Branch/Commit ID: 7030da528559c7106d156284e50ff0ecedab0c4e