the bioinformatics chat

#24 Read correction and Bcool with Antoine Limasset

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Antoine Limasset joins me to talk about NGS read correction.

Antoine and his colleagues built the read correction tool Bcool based on the
de Bruijn graph, and it corrects reads far better than any of the current methods
like Bloocoo, Musket, and Lighter.

We discuss why and when read correction is needed, how Bcool works, and why

it performs better but slower than k-mer spectrum methods.

Links:

  • Preprint: Toward perfect reads: self-correction of short reads via mapping on de Bruijn graphs
  • Bcool on GitHub
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