Workflow: GSC Paired Jobs

Fetched 2022-05-29 05:26:35 GMT

Serial combination of KnowEnG tools

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Workflow as SVG
  • Selected
  • Default Values
  • Nested Workflows
  • Tools
  • Inputs/Outputs

Inputs

ID Type Title Doc
taxon String Subnetwork Species ID

the taxonomic id for the species of interest

genomic_file File Genomic Spreadsheet File

spreadsheet of genomic data with samples as columns and genes as rows

pg_edge_type String Subnetwork Edge Type

the edge type keyword for the subnetwork of interest

gg_network_file File GG Network File

gene-gene network of interactions in edge format

Steps

ID Runs Label Doc
gsc_drawr
gsc_runner.cwl (CommandLineTool)
Gene Set Characterization

Network-guided gene set characterization method implementation by KnowEnG that relates public gene sets to user gene sets

pgkn_fetch
knf_runner.cwl (CommandLineTool)
Knowledge Network Fetcher

Retrieve appropriate subnetwork from KnowEnG Knowledge Network from AWS S3 storage

Outputs

ID Type Label Doc
gsc_drawr_out File
pgkn_fetch_out File
Permalink: https://w3id.org/cwl/view/git/8ca52a8d2b76d91b7618032a22699c5be7d12c6c/code/workflow.gsc.cwl