Difference between revisions of "Edgenl2g"

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* Files and directories
 
* Files and directories
 
* Navigating the file system
 
* Navigating the file system
* File management*
+
* File management
 
* Permissions
 
* Permissions
 
* Accessing files
 
* Accessing files

Revision as of 16:36, 2 October 2016

Introduction

Details of Edinburgh Genomics' Linux for Genomics course

Duration

  • 1 day
  • 2/3's core linux 1/3 genomics focus

Contents

Core Linux

  • The shell and commands
  • Getting help
  • Files and directories
  • Navigating the file system
  • File management
  • Permissions
  • Accessing files
  • Downloading remote files
  • Zipping and unzipping files
  • Pipes and redirects
  • Filtering / manipulating file content
  • Shell scripts
  • Process management

Focused Genomics

Command-line tools for genomics

  • seqtk
  • bioawk
  • samtools
  • bedtools
  • tabix