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_data/sidebars/main.yml

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subitems:
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- title: Home
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url: /index
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- title: Why BioShell?
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- title: Getting started
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url: /why-bioshell
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subitems:
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- title: What is a virtual machine?
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url: /why-bioshell#what-is-a-vm
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- title: Cloud vs HPC
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url: /why-bioshell#cloud-vs-hpc
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- title: Why BioShell?
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url: /why-bioshell#why-bioshell
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- title: BioShell and HPC
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url: /why-bioshell#bioshell-and-hpc
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- title: Accessing BioShell
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url: /access
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subitems:
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- title: Eligibility and acceptable use
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url: /access#eligibility
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- title: Your access pathway
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url: /access#pathways
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- title: Access duration and renewal
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url: /access#duration
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- title: What does access include?
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url: /access#quotas
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- title: Acceptable use policy and service terms
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url: /aup
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url: /why-bioshell
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subitems:
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- title: Acceptable use
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url: /aup#acceptable-use
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- title: Service commitments
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url: /aup#service-commitments
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- title: Privacy and data collection
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url: /aup#privacy
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- title: Choosing an environment size
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url: /flavours
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subitems:
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- title: A familiar starting point
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url: /flavours#familiar-starting-point
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- title: Small — light preprocessing
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url: /flavours#small
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- title: Medium — scRNA-seq and notebooks
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url: /flavours#medium
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- title: Large — variant calling and HPC-scale
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url: /flavours#large
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- title: Not sure? Start small.
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url: /flavours#start-small
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- title: Quick reference
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url: /flavours#quick-reference
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- title: Further reading
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url: /flavours#further-reading
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- title: Connecting to BioShell
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url: /connecting
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subitems:
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- title: SSH key generation guide
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url: /ssh-keys
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- title: Connect via SSH
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url: /connecting#ssh-connect
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- title: Interactive environments
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url: /connecting#interactive-envs
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- title: First login
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url: /connecting#first-login
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- title: What is a virtual machine?
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url: /why-bioshell#what-is-a-vm
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- title: Cloud vs HPC
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url: /why-bioshell#cloud-vs-hpc
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- title: Why BioShell?
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url: /why-bioshell#why-bioshell
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- title: BioShell and HPC
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url: /why-bioshell#bioshell-and-hpc
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- title: Accessing BioShell
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url: /access
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subitems:
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- title: CVMFS access
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url: /connecting#cvmfs-access
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- title: Storage volumes
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url: /connecting#storage
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- title: Eligibility and acceptable use
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url: /access#eligibility
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- title: Your access pathway
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url: /access#pathways
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- title: Access duration and renewal
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url: /access#duration
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- title: What does access include?
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url: /access#quotas
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- title: Acceptable use policy and service terms
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url: /aup
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subitems:
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- title: Acceptable use
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url: /aup#acceptable-use
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- title: Service commitments
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url: /aup#service-commitments
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- title: Privacy and data collection
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url: /aup#privacy
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- title: Choosing an environment size
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url: /flavours
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subitems:
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- title: A familiar starting point
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url: /flavours#familiar-starting-point
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- title: Small — light preprocessing
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url: /flavours#small
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- title: Medium — scRNA-seq and notebooks
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url: /flavours#medium
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- title: Large — variant calling and HPC-scale
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url: /flavours#large
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- title: Not sure? Start small.
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url: /flavours#start-small
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- title: Quick reference
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url: /flavours#quick-reference
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- title: Further reading
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url: /flavours#further-reading
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- title: Connecting to BioShell
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url: /connecting
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subitems:
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- title: SSH key generation guide
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url: /ssh-keys
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- title: Connect via SSH
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url: /connecting#ssh-connect
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- title: Interactive environments
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url: /connecting#interactive-envs
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- title: First login
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url: /connecting#first-login
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subitems:
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- title: CVMFS access
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url: /connecting#cvmfs-access
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- title: Storage volumes
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url: /connecting#storage
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- title: Using BioShell
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url: /using-bioshell
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subitems:

index.md

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---
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title: BioShell
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title:
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description: A guide to accessing and using BioShell, a preconfigured cloud bioinformatics
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environment available on NCI Nirin and ARDC Nectar Research Cloud.
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sidebar: false
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---
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<p style="text-align:center; margin: 1rem 0;"><img src="{{ '/images/BioShell_logo_with_name.png' | relative_url }}" alt="BioShell logo" style="max-width:300px;"></p>
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<p style="text-align:center; margin: 2rem 0 1.5rem;"><img src="{{ '/images/BioShell_logo_with_name.png' | relative_url }}" alt="BioShell logo" style="max-width:600px; width:100%;"></p>
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## Introduction
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