Code Ocean User Guide

v3.0.0

v2.5.0 v2.6.0 v2.7.0 v2.8.0 v2.9.0 v2.10.0 v2.11.0 v2.12.0 v2.13.0 v2.14.0 v2.15.0 v2.16.0 v2.17.0 v2.18.0 v2.19.0 v2.20.0 v2.21.0 v2.22.0 v3.0.0 v3.1.0 v3.2.0 v3.3.0 v3.4.0 Release Notes

v3.0.0

v2.5.0 v2.6.0 v2.7.0 v2.8.0 v2.9.0 v2.10.0 v2.11.0 v2.12.0 v2.13.0 v2.14.0 v2.15.0 v2.16.0 v2.17.0 v2.18.0 v2.19.0 v2.20.0 v2.21.0 v2.22.0 v3.0.0 v3.1.0 v3.2.0 v3.3.0 v3.4.0 Release Notes

Welcome to Code Ocean
Onboarding
- Quick Start Guides
  - Create a Capsule in 5 minutes
  - Create a Pipeline in 5 minutes
- Video Library
Key Concepts
Capsule Guide
Setting up the Environment
Working in a Cloud Workstation
- Launching a Cloud Workstation
- Exiting a Cloud Workstation Session
Data Assets Guide
Pipeline Guide
Release Capsules and Pipelines
Collections
Code Ocean Apps
App Panel Guide
MLflow Guide
Models Guide
- Creating Models
- Managing Models
Git Provider Integration Guide
- Setting up the Integration
- Using Git Provider Integration
Code Ocean API
More Support

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Code Ocean Apps

Use Cases and Examples

This section provides real world examples of how to use Apps Library Capsules for scientific tasks.

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CombFold Pipeline

Data Connector Example

Gene Set Enrichment Overview

RNASeq Quantification Pipeline