Need help?Do you have a question about the illumina NovaSeq 6000 and is the answer not in the manual?
General| Model | NovaSeq 6000 |
|---|---|
| Manufacturer | Illumina |
| Application | High-throughput sequencing |
| Flow Cell Options | S1, S2, S4 |
| Technology | Sequencing by synthesis (SBS) |
| Maximum Output | Up to 6 Tb per run |
| Read Lengths | 50 bp - 300 bp |
| Run Time | 13 hours to 44 hours |
| Applications | Whole-genome sequencing, exome sequencing, RNA-Seq |
| Maximum Samples per Run | Varies depending on flow cell type and experimental design |
| Power Requirements | 200-240V AC, 50/60Hz |
| Operating Temperature | 19°C to 25°C |
| Operating Humidity | 20% to 80% relative humidity, non-condensing |
Information on software downloads, training, compatible products, and recycling.
Details on cluster generation, sequencing process, and data analysis steps.
Step-by-step guide for the sequencing process from thawing to completion.
Explanation of two methods for loading libraries onto a NovaSeq 6000 Flow Cell.
Details on the compartment that holds and secures the flow cell during operation.
Description of the compartment for loading reagents, buffers, and managing used bottles.
Information on the system's design for routing and collecting used reagents.
Overview of the instrument software suite including NVCS, RTA, and Universal Copy Service.
Details on the screen used to monitor run progress and manage disk space.
Introduction to the NovaSeq 6000 Reagent Kits and NovaSeq Xp Kits configurations.
List and storage temperature of components included in each NovaSeq 6000 Reagent Kit.
List of components included in each NovaSeq Xp Kit for the Xp workflow.
Description of the accessory used for loading libraries onto the NovaSeq Xp flow cell.
Explanation of symbols found on consumables and packaging.
Details on the numbered reservoirs within the cluster cartridge, including reserved positions.
Description of ExAmp reagents used in the NovaSeq Xp workflow for master mix preparation.
Description of the manifold used for direct loading of libraries into flow cell lanes.
Instructions for powering on and initiating the NovaSeq 6000 sequencing system.
Guidance on configuring run mode, workflow, BaseSpace, and software updates.
List of consumables and equipment required from the user for operation.
Explanation of Manual and File-Based modes for setting up sequencing runs.
Steps to configure the instrument for manual run setup and data transfer.
Steps to configure the instrument for file-based run setup using LIMS files.
Instructions for configuring LIMS output for file-based mode with external LIMS software.
Overview of the Standard and Xp workflows and their use of ExAmp chemistry.
Steps to enable and configure the NovaSeq Xp workflow in the control software.
Instructions for setting up and connecting to BaseSpace Sequence Hub for data management.
Guidelines for naming sample sheets for runs uploaded to BaseSpace Sequence Hub.
Instructions for enabling, disabling, and manually checking for software updates.
General instructions for preparing consumables, including checking compatibility.
Recommendations for library pooling, denaturation, and loading concentration.
Procedure for thawing SBS and cluster cartridges for sequencing preparation.
Instructions for safely removing and discarding contents from used reagent bottles.
Steps for preparing the flow cell for use, including temperature acclimatization.
Procedure for normalizing and pooling libraries before the sequencing run.
Instructions for creating a normalized library pool for optimal sequencing results.
Guidance on diluting libraries to the desired pooled concentration.
Table of recommended DNA loading concentrations based on library type and insert size.
Procedure for combining normalized libraries and optionally adding PhiX control.
Overview of the NovaSeq Xp workflow and minimum software requirements.
General instructions for preparing consumables for the NovaSeq Xp workflow.
Recommendations for library preparation specific to the NovaSeq Xp workflow.
Procedure for thawing SBS and cluster cartridges for the Xp workflow.
Instructions for emptying used reagent bottles in the Xp workflow.
Steps for preparing the flow cell for the NovaSeq Xp workflow.
Procedure for pooling, denaturing, and loading libraries in the Xp workflow.
Procedure for thawing DPX1, DPX2, and DPX3 reagents for the ExAmp master mix.
Instructions for creating a normalized library pool for the Xp workflow.
Guidance on diluting libraries to the desired pooled concentration for Xp workflow.
Recommended loading concentrations for the NovaSeq Xp workflow.
Steps for preparing SBS and cluster cartridges for the NovaSeq Xp sequencing run.
Procedure for loading an empty library tube into the cluster cartridge.
Instructions for initiating a sequencing run via the software interface.
How to monitor run progress, intensities, and quality scores during a run.
Procedure for deleting a completed run to clear space on the instrument.
Instructions for safely removing and discarding the reservoir from position #30.
Description of the automated post-run wash cycle that cleans the system.
Steps for loading prepared SBS and cluster cartridges into the reagent chiller.
Instructions for loading a new buffer cartridge into the buffer drawer.
Steps to sign in to BaseSpace Sequence Hub for run monitoring and data analysis.
Guide for entering run parameters such as read cycles, index lengths, and output folders.
Reviewing and confirming run parameters before starting the sequencing run.
Information on pre-run checks and how to resolve potential errors.
Explanation of metrics displayed by the software during a run.
How to check the status of run processes on the Process Management screen.
Procedure to start a maintenance wash cycle on the instrument.
Instructions for setting up staggered runs on different flow cells.
Explanation of the countdown timer indicating staggered start availability.
Guidance on checking for, downloading, and installing software updates.
Information on accessing support, documentation, and FAQs for technical assistance.
Description of key log and information files used for troubleshooting.
Actions to resolve errors that occur during the pre-run checks.
Information on potential leaks in the instrument and actions to take.
Troubleshooting options for N/A icons in the Process Management screen.
Options for setting up a new run after a previous run fails before clustering.
Explanation of RTA3 software for image analysis and base calling on the instrument.
Description of the RTA3 workflow steps: registration, intensity extraction, base calling.
Information on the imaging areas on the flow cell and total tile counts per flow cell type.
Explanation of the five-digit tile naming convention based on position and surface.
Process of aligning images to nanowell arrays for cluster position determination.
Calculation of intensity values for each nanowell after image registration.
Correcting for phasing and prephasing effects to improve data quality.
Determining the base call for each cluster using two-channel sequencing data.
How RTA3 filters raw data to remove reads not meeting quality thresholds.
Prediction of incorrect base call probability using Q-scores.
Methodology for calculating and reporting quality scores based on base calls.
Overview of the automatically generated output folder structure for runs.
Description of file types, their location, and naming conventions for sequencing output.
Overview of security configurations to prevent unwanted software.
Default password policies for the instrument control computer.
Explanation of the Windows firewall for filtering traffic and protecting the computer.
Information on EMET for preventing software vulnerabilities and detecting attacks.
Description of SRP rules used to allow only specified software to run.
List of default SRP rules allowed on the NovaSeq 6000 Sequencing System.
Instructions for customizing system security by adding or removing SRP rules.
To Next Page
