Revision History

Document

Date

Description of Change

Document # 200027529 v09

June 2025

Updated guidance for cleaning the flow cell and flow cell stage before loading consumables

Clarified administrator permissions

Corrected the marginal group Q-score to 9

Document # 200027529 v08

November 2024

Added the following information:

• Well positions that include formamide
• Information for NovaSeq X Sequencing System versus Novaseq X Plus Sequencing System
• NovaSeq X Series 25B Reagent Kit (200 cycle, 100 cycle) part numbers
• Wash flow cell use limitations
• Using custom primer checkboxes for run setup
• Performing a system check
• Enabling firewall settings to support remote access features
• Deleting secondary analysis files after transfer
• Uploading intermediate secondary files (BAM/CRAM/FASTQ) to the cloud
• Restarting file transfer

Updated the following information:

• Number of supported analysis application and reference genome combinations updated to 12 with 32 supported kit or setting configurations
• Network settings instructions
• Restart instructions to reflect new feature
• Detailed information on DRAGEN secondary analysis output files, output folder structure, and analysis settings was replaced with references to the support site for more information
• Removed instructions for disabling FSE access

Document # 200027529 v07

June 2024

Updated instrument shutdown guidance.

Added network settings instructions.

Moved denature and dilute instructions to Denature and Dilute Protocol Generator.

Restructured instructions for planning a run.

Document # 200027529 v06

March 2024

Added moving parts warning.

Document # 200027529 v05

October 2023

Updated environmental specification range for relative humidity.

Updated quality scores for marginal, medium, and high-quality base calls.

Removed statement about optimal loading concentration being applicable to identical library types.

Added instructions for configuring DRAGEN Somatic and DRAGEN methylation analysis.

Document # 200027529 v04

October 2023

Updated for NovaSeq X Series 25B Reagent Kit and NovaSeq X Series 1.5 B Reagent Kit.

Updated onboard requeue analysis instructions.

Updated power cycle instructions to include extended shutdown guidance.

Updated user permissions.

Added information for supporting multiple versions of DRAGEN.

Added output information for DRAGEN Methylation and DRAGEN Somatic.

Added instructions for new system configuration settings.

Removed instructions for Instrument Network Configuration.

Document # 200027529 v03

June 2023

Updated maintenance wash.

Updated user permissions.

Updated Taiwan NCC compliance and Korea compliance.

Updated power cycle instructions.

Updated IP configuration settings.

Updated denature and dilute guidance.

Added manual run mode with local analysis.

Added instructions for renewing TLS certificates and adding network time protocol server.

Added instructions for installing DRAGEN versions.

Added guidance on refreezing thawed consumables.

Document # 200027529 v02

February 2023

Added the following information for NovaSeq X Plus:

• Protocol
• Hardware components
• Consumables and equipment
• Software and system settings
• Custom primers
• Sequencing output files and structure
• Maintenance and troubleshooting
• Japan compliance

Updated the following information:

• Laser safety warnings
• Crate contents and delivery requirements
• Network connection requirements

Document # 200027529 v01

November 2022

Added dimensions for sequencing consumables boxes.

Clarified RFID locations and instructions for opening the lyo insert cover.

Clarified instrument dimensions and network requirements.

Document # 200027529 v00

September 2022

Initial release.