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Make Xtree Input Specifications

Process Details

  • Name: make_xtree_input
  • Process UUID: f931ur1qu3xtn7busg0fl2qmytv68q
  • Process Group: short_read_taxonomy

Overview

This process prepares input FASTQ files for XTree analysis by combining multiple FASTQ files into a single consolidated file. It serves as a preprocessing step in taxonomic classification workflows, ensuring that FASTQ data is properly formatted and organized for downstream XTree processing.

This process is implemented in Bash.

Key Functionality

  • File Consolidation: Combines multiple FASTQ files from a set into a single FASTQ file
  • Directory Organization: Creates an organized directory structure for XTree input files
  • Data Preparation: Ensures FASTQ data is properly formatted for taxonomic classification analysis

Input/Output Specification

Inputs

Required Inputs

  • FASTQ Reads
    • Description: A set of FASTQ files containing sequencing reads for taxonomic analysis
    • Format: FASTQ

Outputs

  • FASTQ Set
    • Description: A consolidated set of FASTQ files prepared for XTree taxonomic classification
    • Format: FASTQ

Parameters & Settings

This process uses conditional execution based on the make_xtree_input parameter but does not expose user-configurable parameters in the Foundry UI.

References & Resources

  • Tool Documentation: This process uses standard file manipulation commands and does not rely on external tools requiring specific documentation