bioinformatics chat

Metagenomics and Kraken (#7)

July 9, 2017

What is metagenomics and how is it different from phylotyping?

What is Kraken and how can it be faster than BLAST?

Let’s try to sort this out.



Correction: in this episode, I incorrectly state that Kraken operates on phylogenetic trees, whereas in fact it operates on taxonomic trees.

In practice this means that when Kraken cannot decide among several species, it assigns the read to their lowest common taxon (genus, family etc.), not their latest common evolutionary ancestor.

Music: Eric Skiff — Come and Find Me (modified, licensed under CC BY 4.0).

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