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Setting up HealthOmics - AWS HealthOmics
Sign up for an AWS accountCreate IAM permissions for HealthOmicsConnect with external code repositoriesUsing Kiro CLI with HealthOmicsUsing Kiro IDE with HealthOmics

Setting up HealthOmics

To set up AWS HealthOmics, sign up for an AWS account, create an administrative user, and securely manage access for additional users.

Sign up for an AWS account

To get started with AWS, you need an AWS account. For information about creating an AWS account, see Getting started with an AWS account in the AWS Account Management Reference Guide.

Create IAM permissions for HealthOmics

To use HealthOmics, configure the following IAM permissions:

  • IAM identity-based policies for users in your account to access HealthOmics.

  • An IAM service role for HealthOmics to access resources on your behalf.

  • Permissions in other services (such as Lake Formation and Amazon ECR) for your users and the HealthOmics service to access resources.

For more information about configuring IAM permissions for HealthOmics, see IAM permissions for HealthOmics.

Connect with external code repositories

With AWS HealthOmics, you can manage your workflows using Git-based repositories through AWS CodeConnections. HealthOmics uses this connection to access your source code repositories.

Before working with external code repositories, follow the Setting up connections guide to start working with AWS CodeConnections. Verify that you have created the proper IAM policies and permissions for your AWS account. For a list of supported Git providers and more information, see What third-party providers can I create connections for?.

Create a connection

To create a connection with your preferred repository provider, follow the Create a connection tutorial.

Using Kiro CLI with HealthOmics

Kiro CLI provides natural language interactions with AWS HealthOmics, allowing you to perform complex genomic workflows and analysis tasks using conversational commands. To use Kiro CLI, be sure to configure IAM permissions for HealthOmics and other services (such as CloudWatch, Amazon ECR, or Amazon S3) for Kiro to access their resources.

The HealthOmics Agentic generative AI tutorial provides a step-by-step guidance for configuring context files and enabling Kiro CLI to create, run, and optimize your AWS HealthOmics workflows.

Using Kiro IDE with HealthOmics

In addition to Kiro CLI, you can use the Kiro IDE with HealthOmics:

  • Kiro Power for HealthOmics – A curated and pre-packaged MCP server with steering files and agent hooks that gives the Kiro agent expertise in HealthOmics workflow creation and optimization.

  • Kiro IDE extension for HealthOmics – Provides syntax highlighting, code completion, and troubleshooting guidance for HealthOmics workflows, along with engine compatibility checking, performance optimization recommendations, automated run analysis with failure diagnostics, and workflow import/export capabilities.