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Make Config Specifications

Process Details

  • Name: make_config
  • Process UUID: f931z0yhwtq1ztpt18o376pkran2vu
  • Process Group: Annotation

Overview

This process consolidates multiple ORF (Open Reading Frame) analysis reports and data files into a single organized directory structure. It serves as a final collection step in annotation workflows, gathering all processed outputs for easy access and downstream analysis.

This process is implemented in Bash.

Key Functionality

  • File Consolidation: Collects all ORF analysis outputs into a centralized directory
  • Standardized Naming: Applies consistent naming conventions to output files
  • Report Organization: Creates a structured final reports directory for easy data access

Input/Output Specification

Inputs

Required Inputs

  • ORF Annotation Data

    • Description: Tab-separated file containing ORF annotation information
    • Format: TSV

  • ORF Read Counts

    • Description: Tab-separated file with read count data for ORFs
    • Format: TSV

  • ORF Relative Abundance

    • Description: Tab-separated file containing relative abundance measurements for ORFs
    • Format: TSV

  • Cluster Size Data

    • Description: Comma-separated file with ORF cluster size information
    • Format: CSV

  • Filtered Sequences

    • Description: FASTA file containing filtered ORF sequences
    • Format: FASTA

Outputs

  • ORF Annotations Report

    • Description: Standardized ORF annotation data in the final reports directory
    • Format: TSV

  • ORF Read Counts Report

    • Description: Organized read count data for ORFs
    • Format: TSV

  • ORF Relative Abundance Report

    • Description: Consolidated relative abundance measurements
    • Format: TSV

  • Filtered ORF Sequences

    • Description: Curated FASTA sequences in the final reports directory
    • Format: FASTA

  • Cluster Sizes Report

    • Description: ORF cluster size data in standardized format
    • Format: CSV

Parameters & Settings

This process does not have user-configurable parameters.

References & Resources

  • Tool Documentation: This process uses standard Bash file operations for data organization