---

Data Asset Creation for Pipeline Training

This Capsule runs a python script that uses the Code Ocean SDK to automatically create the following 3 Internal Data Assets and share them with everyone:

• Paired End Reads (8GB)
• Annotation File (1GB)
• STAR Index (28GB)

These Data Assets will be used during a Pipeline Training Session where users will build an RNA Seq Pipeline. This tutorial is also available in the Code Ocean User Guide.

Set up

1. Create a New Capsule and choose the Copy from public Git option

2. Paste in the URL of this Capsule's Git repo: https://github.com/codeocean/pipeline-training-prep.git

3. If using Code Ocean v2.22 or later, the environment should be configured automatically. If not, select a Python starter environment and add the codeocean package to pip.

4. In your Account page, create an Access Token, save it as a Custom Key secret, and attach the secret to this capsule.

5. Change the value of the co_domain variable on line 47 of create_assets.py to your Code Ocean domain.

Usage

You're all set, just click Reproducible Run!

---

Code Ocean brings together open-source tools and cloud technology to help Computational Scientists do great research.