Let's work together

Integrate, analyze, and discover with BaseSpace Sequence Hub

Solving All Your Bioinformatics Needs

BaseSpace Hub Subscription Tiers

BaseSpace Sequence Hub subscription tiers enable labs of all sizes to achieve maximum efficiency with tight instrument integration and simplified collaboration. We have three tiers of offerings.



Available Now


EnterpriseComing Soon

Storage 1 TB Limit Expandable Expandable
Analysis 250 iCredit Limit* Expandable* Expandable*
Run Setup      
Unlimited Monitoring      
Unlimited Sharing      
Multi-user Access      
Bioinformatics Professional Services Support  
(8 hours)

(24 hours)
Multiple Workgroups      
Private Domain and Single Sign-on      
PHI Security/Privacy Compliance      
Access Control & Audit Trail      
Price Free Contact a Sales Rep Contact a Sales Rep


* iCredits will be made available upon launch of compute billing.
For Research Use Only. Not for use in diagnostic procedures.

Simplifying Bioinformatics to Speed Up Discovery

BaseSpace Sequence Hub is the only bioinformatics platform with both cloud and onsite options that is directly connected to all Illumina instruments*.

Stream sequencing runs and store data immediately.

  • With unlimited storage on the cloud, you never have to worry about running out of space.
  • Monitor sequencing runs in BaseSpace Hub with Sequencing Analysis Viewer (SAV) charts.
  • Perform routine data analysis immediately with the push of a button.
  • Choose from more than 70 pre-packaged analysis options available from Illumina and third-party developers
  • Open platform allows you to upload your own pipeline as a public or private app

With BaseSpace Hub there is no need to set-up and maintain IT infrastructure to store and analyze your genomics data.

We offer scientific and technical consulting through our Bioinformatics Professional Services offering to help guide you through bioinformatics workflows. Bioinformatics Professional Services offers group and one-on-one sessions on topics including introduction to bioinformatics, how to use various BaseSpace Hub features to maximize productivity, in-depth discussions on specific NGS workflows, and assistance creating custom pipelines into BaseSpace Hub.

*HiSeqX does not connect to BaseSpace Onsite Sequence Hub

Key Features

In addition to NGS data analysis, sample/run management, and cloud bioinformatics or onsite options, key features of BaseSpace Sequence Hub include:

  • Sequencing instrument integration: BaseSpace Hub is directly integrated with Illumina sequencing instruments. This integration streamlines real-time run monitoring and QC, and facilitates data sharing and transfer.
  • Simplified NGS data management and storage: BaseSpace Hub solves NGS data storage and management challenges with practically inexhaustible storage space, whether cloud or onsite.
  • Easy data sharing: Because the BaseSpace Hub cloud and onsite bioinformatics solutions are accessible everywhere, data sharing is instantaneous. Easily share individual sequencing runs or entire projects with collaborators anywhere in the world with a few clicks.
  • Multiple user Interfaces: BaseSpace Hub offers an intuitive, easy-to-use web-based interface for managing your data. For those more comfortable with a Unix interface, BaseSpace Hub offers a command line option for navigation, downloads/uploads, launching analysis (including automatic launch of applications) as BaseMount.
  • Sample and Run Prep: The Prep tab is an intuitive, graphical environment for one-stop library and run preparation.

Learn More about BaseSpace Hub Features

NGS Data Analysis Apps

BaseSpace Hub offers a wide variety of NGS data analysis apps, including:

  • Illumina Core Apps: Developed or optimized and fully supported by Illumina
  • BaseSpace Lab Apps: Developed using an accelerated process to make them available to BaseSpace Hub users faster than conventional Illumina Apps, and provided as-is
  • Third-party apps: Developed and supported by a thriving ecosystem of third-party app providers in BaseSpace Hub

In addition, BaseSpace Hub enables users to develop custom bioinformatics pipelines in BaseSpace Hub. App developers are able to keep apps private, share with collaborators, or submit for publication to the BaseSpace App store.

Together, these apps cover the common data analysis methods used with Illumina sequencing data. These methods include RNA-Seq, exome /enrichment, amplicon, whole-genome sequencing (WGS), de novo assembly, and 16S metagenomics.

Learn More about BaseSpace Apps

BaseSpace Onsite Sequence Hub

BaseSpace Onsite Sequence Hub is a local version of the BaseSpace Hub cloud bioinformatics solution that enables you to safely and securely store, share, and analyze NGS data from MiniSeq, MiSeq, MiSeqDx (in RUO mode), NextSeq 500, NextSeq 550, HiSeq 2500, HiSeq 3000, and HiSeq 4000 systems. 

Learn More about BaseSpace Onsite Hub

Additional Resources

BaseSpace Hub Data Sheet View PDF Learn more about BaseSpace Hub highlights, tools, and applications.

Get Started with BaseSpace Hub View Video Learn how to get started with push-button bioinformatics in BaseSpace Hub.

BaseSpace Onsite Hub View Video BaseSpace Onsite Sequence Hub allows users to access their next-generation sequencing data anywhere.

BaseSpace Apps Quick Guide View PDF

BaseSpace Hub Support Find user guides, app release notes, and additional technical information. Access BaseSpace Hub Support

Streamlined NGS Data with BaseSpace Hub Read Interview BaseSpace integrated workflow helps BRC-Seq core lab deliver high-quality sequencing data to its customers.

BaseSpace Sequence Hub is intended for research applications and not for any diagnostic or clinical use. It is intended to be used with Illumina research products only.