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DE Collector Specifications

Process Details

  • Name: DE_collector
  • Process UUID: euryfg66hrl5cpvoedj88f32vfx5td
  • Process Group: Differential Expression

Overview

The DE Collector process serves as a final aggregation step in differential expression analysis workflows. It collects and organizes output files from upstream DE module processes, consolidating all differential expression reports and optional Gene Set Enrichment Analysis (GSEA) reports into a unified output directory structure.

This process is implemented in Bash.

Key Functionality

  • Report Aggregation: Consolidates differential expression analysis reports from multiple upstream processes
  • Directory Organization: Moves all DE reports to the main output directory for easy access
  • GSEA Integration: Automatically incorporates GSEA reports when available from upstream enrichment analyses

Input/Output Specification

Inputs

Required Inputs

  • Input TSV File
    • Description: Primary differential expression results file containing statistical analysis outputs
    • Format: TSV (Tab-separated values)

Optional Inputs

  • Additional TSV File
    • Description: Supplementary differential expression or enrichment analysis results
    • Format: TSV (Tab-separated values)

Outputs

  • Output Directory
    • Description: Consolidated directory containing all collected differential expression reports and optional GSEA enrichment results
    • Format: Directory structure

Parameters & Settings

This process does not have user-configurable parameters in the Foundry UI.

References & Resources

  • Tool Documentation: Contact the team for details on the Differential Expression Module implementation