BaseSpace Sequence Hub

Data management and simplified bioinformatics for labs getting started and for rapidly scaling next-generation sequencing (NGS) operations. Read More...
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BaseSpace Sequence Hub Professional Annual Subscription



BaseSpace Sequence Hub Enterprise Annual Subscription


Data Analysis & Storage

Illumina Analytics - 1 iCredit



Illumina Analytics  Starter Pack - 1,000 iCredits



Illumina Analytics  - 5,000 iCredits



Illumina Analytics  - 50,000 iCredits



Illumina Analytics - 100,000 iCredits



Illumina Analytics Consumption Billing


*The 30-day free trial begins automatically when a user first creates an account and logs in. The trial grants users with 250 iCredits (which expire after 30 days) that can be applied to compute fees for any BaseSpace app and data storage above 1 TB. After the trial expires, the user can no longer run apps, but can continue to monitor sequencing runs, automatically demultiplex uploaded runs, store a limited amount of data, share & transfer with collaborators, and download data.

Product Highlights

As a key component of the BaseSpace Suite, BaseSpace Sequence Hub is a direct extension of your Illumina instruments. Encrypted data flow from the instrument into BaseSpace Sequence Hub, enabling you to manage and analyze your data easily with a curated set of analysis apps. BaseSpace Sequence Hub, powered by Amazon Web Services (AWS):

  • Offers a security-first environment
  • Enables you to set up runs and monitor instrument run quality
  • Promotes efficiency by converting sequencing data to a standard format and streaming directly to the cloud
  • Provides access to computing resources without the capital expenditure of in-house infrastructure
  • Increases organizational productivity with easy access to a multitude of genomic analysis apps (provided by you, Illumina, or third parties)

See All BaseSpace Data Analysis Apps

Frequently Purchased Together

ISO 27001 CERTIFIED by schellman
GDPR Ready
Genomic Data Storage & Cloud Security

Securely store, process, and share large genomic and NGS datasets in the cloud with built-in speed and scalability. Learn more about cloud data security best practices.

SARS-CoV-2 NGS Data Toolkit
Integrated Run Setup and Monitoring

Integration with all Illumina instruments means that users can set up runs and monitor them from anywhere.

Streamlined Data Management and Storage

Scale up or down depending upon your storage needs—all without burdening your IT department with hardware maintenance.

Simplified Data Analysis

Easily perform routine data analysis with a comprehensive library of apps available, including a robust suite of accurate, ultra-rapid DRAGEN secondary analysis pipelines.





Included Storage 1 TB 1 TB 1 TB
Complimentary iCredits 250* iCredits 500 iCredits 500 iCredits
Payment Plans n/a Monthly Billing or Pre-paid iCredits Monthly Billing or Pre-paid iCredits
Run Setup and Monitoring
FASTQ Generation Free Free Free
Data Egress Free Free Free
Data Sharing
Advanced Security & Compliance (Encryption, ISO 27001, ISO 27701, ISO 13485)
API and Command-line Access
Number of Users One Unlimited Unlimited
Workgroups   One Unlimited
Premier Security (Private Domain, Single Sign-on**, Audit Trail, Access Control)    
HIPAA BAA (US only)    
Service Level Agreement    

* 250 iCredits expire after 30-day introductory trial.

** Available for systems with control software that support Universal Copy Service. Not available for all legacy systems.

Application Cost Details
Human Whole-Genome Sequencing 7 iCredits
  • Sample: 30X hWGS
  • Size: 120Gb
  • App: DRAGEN Germline
  • Input: FASTQ
  • Output: VCF, BAM/CRAM
Exome Sequencing 2 iCredits
  • Sample: Exome
  • Size: 10Gb
  • App: DRAGEN Enrichment
  • Input: FASTQ
  • Output: VCF, BAM/CRAM
Cancer Panel 2 iCredits
  • Sample: Myeloid Panel
  • Size: 50Mb
  • App: DNA Amplicon
  • Input: FASTQ
  • Output: Somatic variants
Transcriptome 2 iCredits
  • Sample: RNA-Seq
  • Size: 50M Reads
  • Input: FASTQ
  • Output: Fusions, Transcripts
Differential Expression 1 iCredit
  • Sample: Tumor Exome
  • Size: 10Gb
  • App: RNA-Seq Differential Expression
  • Input: FASTQ
  • Output: Somatic variants
RNA Panel 2 iCredits
  • Sample: RNA Panel
  • Size: 3 million reads
  • App: RNA Amplicon
  • Input: FASTQ
  • Output: Somatic variants
16S rRNA 1-2 iCredits
  • Sample: 16S Metagenomics
  • App: 16S Metagenomics
  • Input: FASTQ
  • Output: Taxonomic classifications
BaseSpace Sequence Hub Informational Resources

Get access to a compilation of resources designed to help new users get started with BaseSpace Sequence Hub.

Read Technical Bulletin
BaseSpace Data Sets

See sample data sets for various methods in BaseSpace Sequence Hub, or test apps of interest and evaluate results interactively.

View Data Sets
Illumina Informatics Blog

Read about the latest informatics product releases, version updates, and feature highlights.

Explore Blog Posts

Use Cases

Making Informatics Easy for Helix

How Helix scaled rapidly into one of the largest human exome sequencing operations in the world using BaseSpace Sequence Hub.

Watch Video

Supporting Data and Figures


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