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Introduction to the Command-Line Interface (Shell, Bash, Unix, Linux) (2023)

March 3, 2023 @ 9:30 am - 12:00 pm

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Access to tools and computational resources for large-scale data analysis often require knowledge of the command-line interface (also referred to as Unix or Linux or bash or shell). In this 3-day hands-on workshop participants will learn the following:

  • basic shell commands for navigating the file system, exploring file contents, performing basic operations, such as moving, copying, and renaming
  • how to write shell scripts and use “for” loops for efficiently running the same commands on multiple files
  • how to use HMS-RC’s O2 cluster for high-performance computing (HPC)

Together, this knowledge is critical for researchers looking to improve efficiency when performing computational tasks and it forms the foundation needed to analyze high-throughput sequencing data.