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Monday, June 27 • 9:00am - 11:30am
Small Genomes de novo Assembly and Scaffolding

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Workshop will cover the basics of de novo genome assembly using a small genome example. This includes project planning steps, selecting fragment sizes, initial assembly of reads into fully covered contigs, and then assembling those contigs into larger scaffolds that may include gaps. The end result will be a set of contigs and scaffolds with sufficient average length to perform further analysis on, including genome annotation (link to that nomination). This workshop will use tools and methods targeted at small genomes. The basics of assembly and scaffolding presented here will be useful for building larger genomes, but the specific tools and much of the project planning will be different.

Prerequisites:

  • A general knowledge of Galaxy (for example, you should be familiar with the material in Galaxy 101 or have attended Introduction to Galaxy).
  • A wi-fi enabled laptop with a modern web browser.  Google Chrome, Firefox and Safari will work best. 

 

 


Instructors
avatar for Pip Griffin

Pip Griffin

University of Melbourne
avatar for Simon Gladman

Simon Gladman

Bioinformatician, VLSCI / University of Melbourne
avatar for Torsten Seemann

Torsten Seemann

University of Melbourne


Attendees (16)