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Singular Knowledge Base
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NGS Analysis on G4X
  • NGS Library Preparation
    • Sample Input
    • Library Prep Recommendations
    • Singular Adapters and Primers
    • Library Prep Partners
    • Size Selection and Cleanup
    • Library Quality Control
  • Running the G4X
    • Designing a Sequencing Run
    • Sample Sheet
    • Performing a Run
    • System Maintenance
    • System Troubleshooting
  • NGS Analysis on G4X
    • Data Output
    • PhiX Data
    • Demultiplexing and Filtering
  • G4X Reagents
    • Sequencing Reagents
    • Specifications and Capabilities
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      1. Singular Knowledge Base
      2. NGS Analysis on G4X
      • NGS Library Preparation
        • Sample Input
        • Library Prep Recommendations
        • Singular Adapters and Primers
        • Library Prep Partners
        • Size Selection and Cleanup
        • Library Quality Control
      • Running the G4X
        • Designing a Sequencing Run
        • Sample Sheet
        • Performing a Run
        • System Maintenance
        • System Troubleshooting
      • NGS Analysis on G4X
        • Data Output
        • PhiX Data
        • Demultiplexing and Filtering
      • G4X Reagents
        • Sequencing Reagents
        • Specifications and Capabilities

      NGS Analysis on G4X

      This section will explore data output of the G4 and how to work with downstream bioinformatics pipelines

      Data Output

      • What Are Unfiltered FASTQ Files?
      • What Are Demultiplexed FASTQ Files?
      • Where Are the Run Logs?
      • What Are the Results after Sequencing?
      • What Does the Run Folder Contain?
      • What Are FASTQ Files?
      • How many FASTQ files are there for a Max Read library?
      • Where can I find my raw or demultiplexed/filtered FASTQ files? What are the outputs generated by G4?
      • What data format does the G4 Sequencing Platform output?
      See more

      PhiX Data

      • How are PhiX reads processed by G4?
      • PhiX Statistics: How are they generated, and where are they located?

      Demultiplexing and Filtering

      • How does the Singular Demultiplex software prevent barcode collisions?
      • How to pass the demultiplexing options through the sample sheet?
      • How is the read structure defined for demultiplexing?
      • What are the filtering and masking options for G4 demultiplexing?
      • What parameters in the Singular Demultiplex software control the stringency of read assignment?
      • How does folder autodetection work for the Singular Demultiplex software?
      • How Does Filtering Work?
      • How Do I Demultiplex Off-instrument?
      • What Are Quality Scores?
      • Where does the demultiplexing take place?
      • How do I re-demultiplex my run off-instrument?
      See more
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