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• Batch jobs an job scripting
• FAQ (some are CU-centric)
• Jupyterhub
• Top level

• The Linux Command Line, 2nd ed.

• tmux.

• Linux cheat sheet
• Useful shortcuts
• The linux documentation project: old-school and encyclopedic.

• Nano tutorial

• Erin's Best Practices
• Best Practices for Scientific Computing
• A Quick Guide to Organizing Computational Biology Projects
• Gene name errors are widespread in the scientific literature

• 200825_cheatsheet.docx
• 200827_cheatsheet.docx
• 200901_cheatsheet.docx

• File formats - general
• File formats - genomic
• Connecting to remote servers
• Permissions
• Intro to supercomputing
• Using summit
• Parallel Processing
• 2018 scripting lectures (these include work on Summit)
  • Introduction to Scripting
  • Basic Scripting
  • Arguments, Intro to Flow Control
  • Assignment 5
  • Loops and More Conditionals
  • Sed and grep
  • Substitutions and regular expressions
  • Assignment 6
  • Example Bioinformatics Pipeline
  • Using regular expressions to find sequence motifs
  • Downloading, installing, and running Bioinformatics software on Summit