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Stream data from Illumina instruments with real-time cloud capabilities and automatic analysis
For a complete list of security and privacy certifications visit the Illumina Trust Center.
Illumina sequencer supported
push-button analysis apps
real-time run monitoring from any device
Stream sequencing data directly to the cloud as your instrument generates it. Quality metrics appear in real time. By lane, by cycle, from any browser, on any device. Know instantly when a run completes or if it needs attention.
Configure your samples once or import them from a file. DRAGEN automatically launches, including germline, somatic, RNA, methylation, or curated apps after run completion. Results require no manual steps. Get push-button analysis for every method, from amplicon to whole genome.
Real-time quality metrics by lane and by cycle. Run Insights tracks instrument performance trends across every run in your lab, identifies degradation proactively, and helps you take action before it affects results.
Data lands in BaseSpace and flows into downstream analysis, interpretation, and exploration without manual handoffs.
Auto-launch DRAGEN at run completion for germline, somatic, RNA, methylation studies, and more. Results are automatically routed downstream for further processing and interpretation.
Data transitions directly from BaseSpace without exportation or migration steps. Custom pipelines, cohort analysis, and scalable compute are ready when you are.
Emedgene delivers DRAGEN-called variants directly into AI-assisted interpretation for rare disease and hereditary screening research with zero file transfers between steps.
BaseSpace triggers DRAGEN somatic analysis on BioInsight Platform Core. Results flow into Illumina Connected Insights for AI-assisted interpretation, enabling a streamlined sequencer to research report workflow.
Combine RNA, protein, and methylation data sets from BaseSpace runs for integrated, multiomic analyses. This intuitive software helps unlock deeper biological insights and greater scalability across studies.
The automation and advanced out-of-the-box integration features in BaseSpace have helped us scale up to a rapidly growing number of samples and maintain a consistently high level of quality in our operations. Without BaseSpace, it would have been challenging to address the increased demand.
See how labs like yours use BaseSpace.
Watch how Helix scaled into one of the largest human exome sequencing operations in the world with automation and out-of-the-box integration, all while maintaining quality across a rapidly growing sample volume.
Read how an integrated BaseSpace workflow tracks samples from library prep through data analysis to deliver high-quality sequencing data with full traceability.
Oxford Molecular Diagnostic Centre
Learn how BaseSpace analyzes, stores, and disseminates clinical research data without bioinformatics staff or on-premises servers so the research team can focus on science.
Read how BaseSpace securely stores and scales to large volumes of sequencing data for thousands of clients without adding operational complexity.
Try the complete BioInsight Platform free for 30 days with no credit card, no purchase order, and no obligations. When you're ready to scale, pay only for what you use or choose the option to save with volume discounts.
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Perfect for: Evaluation and pilot projects
Full platform access for 30 days
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100 Illumina BioInsight Credits included
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Perfect for: Variable workloads and usage
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Pay only for what you use
Monthly billing
Premium support options available
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Perfect for: Production and predictable usage
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Get answers to common questions about BaseSpace
BaseSpace gives you a single, secure home for your sequencing data, so you can move from instrument to insight without managing your own infrastructure. Data streams directly from your Illumina sequencer in real time, is automatically converted into standard formats, and is ready to analyze with a rich catalog of push-button apps that handle alignment, variant calling, visualization, and interpretation. You get 1 TB of complimentary storage, the ability to monitor runs live, and faster run setup through saved sample and run information. Built-in sharing and transfer tools make it easy to collaborate with colleagues and customers, turning genomic analysis into a streamlined, reproducible, and scalable workflow.
Automatically. Every current Illumina sequencer (NovaSeq X/X Plus, NovaSeq 6000, NextSeq 1000/2000, NextSeq 550, MiSeq, MiSeqDx, MiniSeq, iSeq 100) comes with direct, built-in integration with BaseSpace. Data streams to the cloud as your instrument generates it, in real time, encrypted, with no manual export step.
30+ curated analysis apps are available, including DRAGEN (germline, somatic, RNA, and methylation) as well as third-party and open-source tools covering RNA-Seq, amplicon, whole-genome, exome, metagenomics, de novo assembly, and more. All apps are accessible through a point-and-click interface.
There is no subscription fee to use BaseSpace. 1 TB of storage is included. Analysis app compute and any storage over 1TB is billed in BioInsight Credits (BIC), where 1 BIC = $1 USD. You only pay for the compute you use.
BaseSpace handles sequencer-to-cloud connectivity, run management, and push-button analysis apps. BioInsight Platform Core handles advanced pipeline orchestration (CWL, Nextflow), data warehousing, interactive computing (JupyterLab), and cohort infrastructure. They are complementary: BaseSpace is the entry point, BioInsight Platform Core is the advanced layer. Many labs start with BaseSpace and graduate to BioInsight Platform Core as workflows grow in complexity.
The simplest way to think about it: BaseSpace is the run-centric hub for getting from sequencer to standard secondary analysis, while BioInsight Platform Core is the flexible, developer-grade platform for managing and analyzing large-scale omics data.
You don’t have to choose just one; they are complementary. Many customers use BaseSpace for instrument data capture and orchestrating secondary analysis, which runs on BioInsight Platform Core infrastructure. When they need more advanced, customized analyses and data management, they use BioInsight Platform Core directly.
Yes. BaseSpace provides governed data sharing with audit-controlled access. Collaborators view or download their data directly from BaseSpace without requiring file transfers, FTP, or external drives.
BaseSpace is part of Illumina BioInsight Platform Cloud security certification stack: ISO 27001, ISO 27701, ISO 27017, ISO 27018, SOC 2 Type II, C5 Level 2, TX-RAMP, and supports HIPAA/HITECH (BAA required). Full details can be found at trust.illumina.com.
Yes. BaseSpace provides a RESTful API and "AI" friendly CLI tools for automation, custom integrations, and programmatic data access. Free data egress means you can pull data into your own downstream workflows at no additional cost.
Connect your sequencer to BaseSpace with 1 TB included and no credit card required.
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