Spatial Informatics Platform

Worm's eye view of a monitor with AtoMx UI on screen

Unlock the Universe of Spatial Biology with AtoMx™ SIP

AtoMx™ Spatial Informatics Platform (SIP) is a cloud-based, fully-integrated informatics platform for spatial biology.​

No coding experience is required to use AtoMx SIP. Researchers can analyze and visualize spatial multiomics data with ease while utilizing NanoString-configured analysis modules and pipelines. For researchers with computational experience, custom analysis modules and pipelines can be created and executed all while leveraging the compute power of the cloud.​

With advanced analytics enabling collaboration, ​AtoMx SIP helps researchers analyze large amounts of spatial multiomics data.​

AtoMx End-to-End Workflow







Spatial Biology At Your Fingertips

Visualize your spatial data while carefully extracting transcript-level insights directly from your tissue sample - AtoMx Spatial Informatics Platform
Visualize your spatial data while carefully extracting transcript-level insights directly from your tissue sample.​

Obtain comprehensive insights from your CosMx™ SMI spatial multiomics data with the click of a button. ​​

AtoMx SIP enables users to perform image analysis & data visualization, utilize scalable cloud compute and storage, and export data for open source analysis.​

The platform allows researchers to focus on obtaining insights from single-cell spatial data across oncology, immunology, neuroscience, and other research applications faster than previously possible.​​

Key Features of AtoMx

NanoString Spatial Platform Integration

Stream image and count files seamlessly from CosMx SMI into AtoMx SIP​.

Data Management

Securely store, manage, and export spatial multiomics data around the globe​.

Analyze & Visualize Spatial Data

Perform secondary analysis and tertiary analysis with preconfigured modules and data analysis pipelines.

Custom Analysis

Edit pre-built modules and pipelines OR build custom modules and pipelines to analyze spatial data to fit your needs.*

Security & Compliance

Single Sign-On authentication backed by standard-compliant data encryption for data-in-transit and data-at-rest through Amazon Web Services.

* R scripts supported for CosMx SMI​​

Frequently Asked Questions

What is SaaS (Software as a Service)? 

SaaS is a complete service and a way to distribute software applications via the internet as a service. SaaS applications are web-based which means that they are available on-demand, anytime/anywhere, and typically require subscriptions to access all features.   
These applications are not installed or run locally on someone’s computer in a lab. Instead, they run on the cloud computing servers such as Amazon Web Services (AWS), Microsoft Azure, and Google Cloud. 

What is AtoMx Spatial Informatics Platform (AtoMx SIP)?

AtoMx is an integrated, cloud computing platform for spatial biology that can be used to visualize, analyze, and export data from CosMx™ Spatial Molecular Imager (SMI).

AtoMx is offered as a Software-as-a-Service (SaaS) product that will allow scalability with on-demand data storage and compute resources. Standardized export data formats for the platforms will help enable collaboration.

Additionally, customers will have the ability to use preset analysis modules or create custom modules in R. Artificial intelligence (AI) capabilities will also be enabled in future software versions.

Why is AtoMx SIP delivered as a SaaS application?

Providing AtoMx as a SaaS application allows NanoString customers to analyze, store, and compute data on the cloud as opposed to hosting analysis in-house or locally on someone’s computer hard drive. The AtoMx platform runs on an industry leading life science cloud computing service.  
The SaaS delivery model enables the NanoString Software Team to seamlessly push new software features and services in the future without the need for any manual software updates. Additionally, it allows easy access to AtoMx for those customers who do not own a NanoString spatial instrument via a subscription model without having to purchase individual software licenses.  

What is the expected pricing for AtoMx SIP? 

AtoMx SIP is complimentary for the first year after the purchase of a CosMx SMI instrument. Please contact your local sales team for pricing information after the first year.  

Related Resources

Brochure/eBook CosMx™ SMI – Brochure
Event Spatial Informatics 101: Intro to Spatial Biology Data Analysis
Manual/Instructions NanoU Training Videos

Support Documents