Docs / Data sources / Illumina BaseSpace

Illumina BaseSpace

Business software

Built when you ask for it

Sync Illumina BaseSpace run, sample, project, and dataset data into your warehouse. Ingest builds this connector the first time a customer asks for it, then keeps the tables current in a data warehouse you own, on the schedule you choose.

The Illumina BaseSpace connector syncs your genomic sequencing data into analytics-ready tables in your data warehouse. Pull runs, samples, projects, and datasets from the BaseSpace API, with Ingest handling auth, pagination, and retries so the tables stay current.

What you would get

Each of these arrives as its own table, kept current on the schedule you choose:

  • Runs
  • Samples
  • Projects
  • Datasets

How it gets built

  1. Choose Illumina BaseSpace when you set up a pipeline, with the warehouse it goes to and a schedule.
  2. Ingest reads Illumina BaseSpace's documentation, and you choose the tables you want.
  3. Ingest builds the connector and tests it against Illumina BaseSpace itself.
  4. A person at Ingest reviews and publishes it, and your pipeline starts on its own.

What you will need

OAuth 2.0. Register an app in BaseSpace for a client ID/secret, then complete a web authorization-code or device-authorization flow to get a per-user access token.

You enter it once, in a form in Ingest, and it is kept in a secret store set aside for your organization.

Questions

Does Ingest have a Illumina BaseSpace connector?
Not as a finished connector yet. Ingest builds it from Illumina BaseSpace's own documentation the first time a customer asks, tests it against the real service, and lists it once it passes.
Which warehouses can Illumina BaseSpace data go to?
Amazon S3, Google Cloud Storage, Azure Blob Storage, Apache Iceberg, Ingest Managed Lakehouse, MotherDuck, Postgres, Amazon Athena, Databricks, Redshift, BigQuery, ClickHouse, MySQL / generic SQL and Snowflake, in an account you own.
Do I need to write code?
No. Ingest builds, runs and maintains the connector. Someone with access to your warehouse connects it once, following a short guide.

Illumina BaseSpace API documentation: https://developer.basespace.illumina.com/

Setting up the destination is its own short guide, one per warehouse or lake: Amazon S3, Google Cloud Storage, Azure Blob Storage, Apache Iceberg, Ingest Managed Lakehouse, MotherDuck, Postgres, Amazon Athena, Databricks, Redshift, BigQuery, ClickHouse, MySQL / generic SQL, Snowflake.

Other sources Ingest connects for SaaS teams: Asana, Jira, Airtable, Clockify, Facebook Ads, Frankfurter.

Request Illumina BaseSpace