Code Ocean

Upload clinical data to a secure capsule.

Execute analysis scripts in a locked environment.

Generate a tamper-proof provenance report.

Share the executable capsule with regulatory reviewers.

Author packages code/data into a Code Ocean capsule.

Code Ocean mints a DOI for the capsule.

Reviewers click 'Run' in the browser to replicate results.

The capsule is embedded directly into the digital journal article.

Primary investigator creates a standard bioinformatics pipeline capsule.

Collaborators are invited to the workspace.

All parties run the same code on the same data using Code Ocean's cloud compute.

Synchronized results are stored in a central repository.

Standardize the dataset in a read-only capsule volume.

Create separate capsules for each model architecture.

Execute runs on identical GPU instances via the platform.

Compare performance metrics in a consolidated dashboard.

Professor creates a 'Golden Image' capsule with all libraries pre-installed.

Students clone the capsule with one click.

Students complete assignments in the browser-based IDE.

Professor reviews and executes student code instantly.

Create a capsule with a legacy OS base image (e.g., Ubuntu 14.04).

Install legacy compilers and libraries.

Archive the capsule as a permanent, executable snapshot.

Run the old code in 2026 within the containerized environment.

Develop the pipeline in a Compute Capsule.

Use the Code Ocean API to trigger runs for each new data file.

Auto-export results to an external S3 bucket.

Receive notifications upon successful pipeline completion.