UNIX and NGS
1.0
  • Installation instructions
  • Connecting to the remote machine
  • Session 1: Basic Unix
  • Session 2: Genomics data
  • Session 3: Plain text file processing in Unix
  • Session 4: Running a project
  • Session 5: Graphics session
  • Session 6: Git and GitHub
  • Session 7: Variant quality
  • Session 8: Bioinformatic pipelines
  • Links
    • Advanced Bash
    • Bash command help re-imagined
    • Some fun
    • R Studio
    • Visual design
    • Genomic tools
    • Genomic data formats
  • A few more tips
  • Reference manual for Unix introduction
  • Important NGS formats
  • Additional exercises
  • Course materials preparation
  • Slide decks
UNIX and NGS
  • Links
  • View page source

Links

Here is few sources that you can go through, when you get bored during the course…

Advanced Bash

  • Advanced Bash-Scripting Guide

  • Bash one-liners explained

  • The Bash Primer

  • Explanation of a scrollback buffer

Bash command help re-imagined

  • tldr pages

  • explainshell

Some fun

  • Bash game to celebrate 50th anniversary

  • Regex golf

  • Regex test and explain

  • Faces behind Unix

R Studio

  • A few nice cheat sheets

Visual design

  • Martin Krzywinski: Keynote on Visual Design Principles

  • Nature Methods’ Points of View

  • Gestalt principles 1

  • Gestalt principles 2

  • Well designed color palettes

Genomic tools

  • Bedtools

  • Vcftools

Genomic data formats

  • VCF

  • GFF

  • BED

Previous Next

© Copyright Libor Morkovsky, Vaclav Janousek.

Built with Sphinx using a theme provided by Read the Docs.