Online computing and analysis resources I've found useful for my research at at some point.

 

Genomics

 

Statistics

 

Coding/Editors

  • Homebrew - For downloading/installing on Mac. Original code by Max Howell, Website by Remi Prevost.
  • Perl 5 By Example - Intro to programming in perl. By David Medinets.
  • vi cheat sheet by Lagmonster.

 

Parsing and Analysis

  • Bedtools: Dealing with Bed files, by Aaron Quinlan
  • PGDSpider: Conversion tool for population genomics data types.
  • Galaxy: Open source, web-based platform for data intensive biological research.
  • DAVID: Database for Annotation, Visualization and Integrated Discovery
  • GORILLA: Gene Ontology enRIchment anaLysis and visuaLizAtion tool
  • Databases for teaching: Ernest, Morgan; Brown, James; Valone, Thomas; White, Ethan P. (2015): Portal Project Teaching Database

 

Viewing phylogenetic trees

For browsing: more comprehensive collections of bioinformatics resources

 

Writing and Publishing

 

Using Git