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Connect to CCB
First steps
Introduction
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VPN setup
Microsoft Windows setup
First connection over SSH
Change your SSH password
Configure SSH
Benefits of configuring SSH
Set up an SSH key pair
Configure an SSH host
Advanced client configuration
Linux command line
Linux essentials
Introduction to Linux and Bash
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Files and directories
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Files and permissions
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Link to files and directories
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Working in Linux
Linux streams
The Linux pipe
Combine commands
Compress and decompress files
Filter and sort file contents
Searching for files
Loop over items and files
Linux processes
Introduction to Linux processes
Monitor processes
Resilience to loss of connection
Environment modules
Using environment modules
Configuration
The .bashrc file
Environment variables
Advanced configuration
Data management
Organisation and backup
Philosophy
Collaboration projects
Name files carefully
Back up your work
Compress large files
Delete intermediate files
Use symbolic links
Monitor your disk space quota
File transfers
Using FileZilla
Using the command line
Slurm
HPC resources
Slurm commands
Links to Slurm documentation
Conda
Introduction to Conda
Install Miniconda
First steps with Conda
Use Conda environments
Conda cheatsheet
Python
Setup
Using Python on the CCB cluster
Setup Python on macOS
Setup Python on Windows
R
Setup
Using R on the CCB cluster
Setup R on Windows
Install Bioconductor
Pipelines
The DRMAA API
The cgatcore library
Help
Contact
Links to external resources
Contributing
On this page
University of Oxford
Conda
Links to external resources
Links to external resources for further reading are gathered here.
On this page
University of Oxford
Conda
University of Oxford
#
MRC Weatherall Institute of Molecular Medicine
MRC WIMM Centre for Computational Biology
IT Help
Conda
#
Conda documentation website
Conda documentation
Miniconda documentation
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