INF-BIOx121
2016
  • De novo genome assembly
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De novo genome assemblyΒΆ

A module in the fall 2016 edition of INF-BIOx121

Slides:

  • Introduction to the assembly module
  • Principles and problems of de novo genome assembly
  • De novo assembly using velvet
  • Assembly before and after

Practicals:

  • Schedule for the Assembly module
  • Assembly using velvet
  • Mapping reads to an assembly and visualising the results
  • Assembly improvement using REAPR
  • Assembly using SPADES
  • Assembly using CANU
  • Assembly using miniasm+racon
  • Comparing assemblies to the reference
  • Mapping PacBio and MinION reads using bwa
  • Sources of programs, scripts, datafiles etc

Content of the etherpad


© Copyright 2016, Lex Nederbragt. Revision e4e51f00.

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