ElemBio Catalyst

ElemBio Catalyst is a subscription-based native cloud analysis solution within ElemBio Cloud that stores and analyzes AVITI data. ElemBio Catalyst provides Amazon S3 storage buckets for storage connections that Element manages on your behalf.

For sequencing, Element sets up a customizable Bases2Fastq flow and automatically generates a FASTQ file when a run completes.

For cytoprofiling, Element sets up a customizable Cells2Stats flow and automatically generates a visualization file when a run completes, which allows you to load a cytoprofiling run into CytoCanvas.

ElemBio Catalyst also supports highly accurate and efficient secondary analysis workflows for whole genome sequencing and enrichment panel applications as a premium subscription. Premium workflows are only available on ElemBio Catalyst.

For a complete list of assignment and secondary analysis workflows and available providers, see the Workflow Library.

ElemBio Catalyst Subscription

ElemBio Catalyst is an annual subscription that includes usage credit for the subscription year. After the usage credit is exceeded, per-use rates apply and are billed quarterly. Usage is calculated based on storage-based costs, data transfer (egress), API usage, and compute costs and can be monitored on the usage dashboard.

• Compute costs: When you run a flow on ElemBio Catalyst, one or more compute instances from the platform's underlying cloud infrastructure provider are used to process the data.
• Storage costs: When runs are transferred to your runs storage bucket, or when cloud analysis is completed, files are hosted in cloud storage. Charges can be managed through custom storage and retention policies.
• Data transfer costs: When data is transferred out from the cloud storage, data transfer costs are generated.

To use ElemBio Catalyst, purchase the ElemBio Catalyst subscription or use the 45-day free trial. If your ElemBio Catalyst storage connection is disabled, then an Expired badge is displayed for 14 days and the run storage connection cannot be used to upload runs. After 14 days, the ElemBio Catalyst storage connection is no longer visible in AVITI OS. To resubscribe to ElemBio Catalyst, contact Element Technical Support.

Initial Setup

The ElemBio Catalyst subscription automatically creates the following services:

• Two cloud storage buckets that Element manages on your behalf:
  • One bucket that stores run data from your AVITI Systems
  • One bucket that stores files output from analysis flows
• One cloud compute connection that Element manages on your behalf:
  • A verified Bases2Fastq flow with the default configuration of the latest version and no optional parameters
  • A verified Cells2Stats flow with the default configuration of the latest version and no optional parameters
• Access to data browsing and file downloading features for your runs

Data Storage Retention

The ElemBio Catalyst Data Lifecycle Policy is customizable. You can modify the length of time it takes before run or analysis data is archived or deleted. When data is archived, it is accessible from ElemBio Cloud, but it is not downloadable. Data that is kept in archive reduces usage-based storage costs. Archived data is available upon request until the deletion date. By default, the data lifecycle policy archives data 30 days after it was created, and deletes data 1 year from the date it was created.

Request archived data

1. Contact Element Technical Support.
2. Provide the directory that you want to restore.
3. Wait 2-3 days for the data to be available for use.

   Unarchive might take up to 24 hours to process.

Set Up ElemBio Catalyst

1. On the Providers page, select ElemBio Catalyst.
2. Select the preferred region.

   For optimal performance, select the closest region. For a list of available regions, see Supported Regions.

3. Select Get Started!

   ElemBio Catalyst resource provisioning takes a few minutes to set up. After setup is completed, ElemBio Cloud displays cards for the ElemBio Catalyst provider, storage connections, compute connection, Bases2Fastq flow, and Cells2Stats flow.

Sharing ElemBio Catalyst Data with an AWS Account

ElemBio Cloud allows you to grant specific types of AWS principals with limited and read-only access to an ElemBio Catalyst storage connection. Eligible types of AWS principals include an IAM role, IAM user, or AWS account.

You can enable sharing through an Amazon S3 bucket policy, which is a JSON-based document that defines permissions for an Amazon S3 bucket and its objects. The bucket policy allows you to grant access to the bucket, specify actions that users can perform, and set conditions for the actions. Read-only bucket policies simplify access management for scenarios where modifications of data is not required, such as:

• Extracting data from ElemBio Catalyst to your AWS account
• Reading data directly from ElemBio Catalyst into your existing pipelines
• Sharing data with research partners for direct data download of run or analysis data
• Sharing your FASTQ files directly to third-party analysis platforms for secondary analysis
• Sharing your data directory to your vendors.
• Sharing data directly to other platforms.

Grant Access to an AWS Principal

1. From the Storage page on the storage connection card, select More, and then select Manage Data Access.
2. Select Add Principal ARN.
3. Enter the AWS Principal ARN for the IAM role, IAM user, or account that you want to grant access to.
4. (Optional) Enter a description of the account.
5. Select Save.

   After you add a principal in ElemBio Cloud, the Amazon S3 bucket policy grants read-only access to the AWS Principal ARN.

Supported Regions

ElemBio Catalyst supports a limited number of AWS regions for storage and compute resources. To request the onboarding of additional AWS regions, contact Element Technical Support.

Name	Region
Africa (Cape Town)	af-south-1
Europe (Frankfurt)	eu-central-1
Europe (Ireland)	eu-west-1
Cananda (Central)	ca-central-1
US East (N. Virginia)	eu-east-1
US West (Oregon)	us-west-2