Explore Workflows

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

Graph Name Retrieved From View
workflow graph record-in-secondaryFiles-wf.cwl

https://github.com/common-workflow-language/cwl-v1.2.git

Path: tests/record-in-secondaryFiles-wf.cwl

Branch/Commit ID: 1f3ef888d9ef2306c828065c460c1800604f0de4
workflow graph DiffBind spike-in - Differential Binding Analysis of ChIP-Seq or CUTß&RUN/Tag Peak Data with spike-in

Differential Binding Analysis of ChIP-Seq, ATAC-Seq, or CUT&RUN/Tag Peak Data with spike-in --------------------------------------------------- DiffBind processes ChIP-Seq, ATAC-Seq, or CUT&RUN/Tag data enriched for genomic loci where specific protein/DNA binding occurs, including peak sets identified by peak caller tools and aligned sequence read datasets. It is designed to work with multiple peak sets simultaneously, representing different ChIP, ATAC, or CUT&RUN/Tag experiments (antibodies, transcription factor and/or histone marks, experimental conditions, replicates) as well as managing the results of multiple peak callers. This specific workflow is designed for experiments that use a spike-in control for each sample. These spike-in reads are used to normalize the datasets during differential analysis using the RLE method (for either edgeR or DESeq) while accounting for background (spike-in). For more information please refer to: ------------------------------------- Ross-Innes CS, Stark R, Teschendorff AE, Holmes KA, Ali HR, Dunning MJ, Brown GD, Gojis O, Ellis IO, Green AR, Ali S, Chin S, Palmieri C, Caldas C, Carroll JS (2012). “Differential oestrogen receptor binding is associated with clinical outcome in breast cancer.” Nature, 481, -4.

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

Path: workflows/diffbind-for-spikein.cwl

Branch/Commit ID: 93b844a80f4008cc973ea9b5efedaff32a343895
workflow graph strelka workflow

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

Path: definitions/subworkflows/strelka_and_post_processing.cwl

Branch/Commit ID: e0b3c76e38630fb6234414b5adebfb6a4fb23117
workflow graph running cellranger mkfastq and count

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

Path: definitions/subworkflows/cellranger_mkfastq_and_count.cwl

Branch/Commit ID: c711498c04d6b8ddf92ddceb6219f074765f7993
workflow graph scatter-wf3_v1_1.cwl#main

https://github.com/common-workflow-language/cwl-utils.git

Path: testdata/scatter-wf3_v1_1.cwl

Branch/Commit ID: e78db9870cb744fe36674f43b3223c688e9989e1

Packed ID: main
workflow graph default_with_falsey_value.cwl

reproduces https://github.com/DataBiosphere/toil/issues/3141

 https://github.com/common-workflow-language/cwl-v1.2.git

Path: tests/default_with_falsey_value.cwl

Branch/Commit ID: 57baec040c99d7edef8242ef51b5470b1c82d733
workflow graph exome alignment and tumor-only variant detection

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

Path: definitions/pipelines/exome.cwl

Branch/Commit ID: a9133c999502acf94b433af8d39897e6c2cdf65f
workflow graph step-valuefrom3-wf.cwl

https://github.com/common-workflow-language/cwl-v1.2.git

Path: tests/step-valuefrom3-wf.cwl

Branch/Commit ID: ea9f8634e41824ac3f81c3dde698d5f0eef54f1b
workflow graph align_sort_sa

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

Path: task_types/tt_align_sort_sa.cwl

Branch/Commit ID: 72c3091012f5c2dce38ad9213cda617d2c7a61ac
workflow graph record-in-secondaryFiles-wf.cwl

https://github.com/common-workflow-language/cwl-v1.2.git

Path: tests/record-in-secondaryFiles-wf.cwl

Branch/Commit ID: 57baec040c99d7edef8242ef51b5470b1c82d733