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Introduction to UNIX command line

Author(s): Serghei Mangul1, Kristen Butela2, Michael Sierk3, Lihua Stefan

1. University of California - Los Angeles 2. University of Pittsburgh 3. Saint Vincent College

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Summary:
A laboratory module for an upper-level undergraduate biology course in which students will be able to carry out simple tasks using the Unix command-line environment.

Licensed under CC Attribution-ShareAlike 4.0 International according to these terms

Version 2.0 - published on 22 Jan 2020 doi:10.25334/H7TG-G648 - cite this

Keywords

  1. NIBLSE
  2. command line
  3. UNIX
  4. sequence analysis

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  2. Audience Level
  3. Activity Length
  4. NIBLSE Core Competencies
  5. NIBLSE Status
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Description

This laboratory module leads undergraduate biology students in learning how to operate in a command-line environment.  It is derived from a workshop given by the Institute for Quantitative and Computational Biosciences at UCLA, primarily to graduate students and research scientists with the need to learn how to process sequence data in a Unix environment.  The materials from that three-day workshop are available here: https://github.com/QCB-Collaboratory/W1.UNIX.command.line/wiki.  These materials can be used as background for the Instructor and/or students, or as an extension of this exercise.

Notes

This version includes extensive teaching notes, clarified learning outcomes, and more student-centered, inquiry focused pedagogical strategies. The material was also adapted to fit in one three-hour laboratory period. 

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