• 1. Getting Started
  • 2. Morning Session
    • 2.1 Resources for new users
    • 2.2 Introduction to the Cowboy
    • 2.3 Unix overview
    • 2.4 Unix essentials
    • 2.5 Answers!
  • 3. Afternoon Session
    • 3.1 Terminology
    • 3.2 Data Acquisition
    • 3.3 Regular expressions
    • 3.4 My first bash script
    • 3.5 Version with with git
    • 3.6 Sources afternoon
  • 4. Wrap-up

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Introduction to Programming for beginners > Afternoon Session > Sources afternoon

Sources afternoon

Most of the code that was presented to you during the afternoon session was developed or adapted by Andres. However, some commands (no modification) were obtained from the following sources:

  • https://raw.githubusercontent.com/stephenturner/oneliners/master/README.md
  • http://gettinggeneticsdone.blogspot.com/2013/10/useful-linux-oneliners-for-bioinformatics.html#comments
  • http://sed.sourceforge.net/sed1line.txt
  • https://github.com/lh3/seqtk
  • http://lh3lh3.users.sourceforge.net/biounix.shtml
  • http://genomespot.blogspot.com/2013/08/a-selection-of-useful-bash-one-liners.html
  • http://biowize.wordpress.com/2012/06/15/command-line-magic-for-your-gene-annotations/
  • http://genomics-array.blogspot.com/2010/11/some-unixperl-oneliners-for.html
  • http://bioexpressblog.wordpress.com/2013/04/05/split-multi-fasta-sequence-file/
  • http://www.commandlinefu.com/