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Welcome to the CLIMB-BIG-DATA documentation!
These docs are designed to help you get the best out of the CLIMB-BIG-DATA infrastructure.
How to access CLIMB-BIG-DATA and find your way around via the Bryn web interface. Bryn is the web interface for CLIMB-BIG-DATA, and is the primary way to access the infrastructure. From Bryn you can manage your team, its resources, the S3 buckets and your notebooks. CLIMB Notebooks, on the other hand, are Jupyter notebooks fully integrated with CLIMB and its storage, with first-class support to Nextflow pipelines.
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Registration
How to register and access CLIMB-BIG-DATA.
Authentication
How to login to Bryn, and setup two-factor authentication.
Everything you need to understand, use and get the most out of Jupyter Notebook Servers.
Introduction
An introduction to the what and why of notebook servers.
Quick start
How to launch, access and get started using a notebook server.
Using the terminal
How to use the terminal inside a notebook server, with an explanation of caveats.
Using Visual Studio Code
How to connect to your CLIMB Notebook using VS Code
Understanding storage
An explanation of the different storage options available and when to use what.
Installing software with Conda
How to install software using Conda, in the context of a containerized environment.
Using Nextflow
How to use Nextflow with CLIMB-BIG-DATA.
Metagenomics walkthrough
A simple walk-through of some CLIMB-BIG-DATA functionality.
QIIME 2
How to install QIIME 2 on a notebook server and basic usage.
nf-core pipelines
How to run some of the nf-core pipelines on CLIMB notebooks
How to fix login error 403
An explanation of how to resolve login error 403 when accessing notebooks.