Assessment of de novo genome assembly accuracy ?
Hi,
I would like to assess my de novo genome assembly. I only know REAPR (http://www.sanger.ac.uk/science/tools/reapr) but apparently it cannot be use if I have assembled my genome with multi libraries (different insert sizes).
Do you know any other software that can evaluate a de novo assembly ?
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Brian Bushnell
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written
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Picasa
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Picasa
1 answer
ALE: assembly likelihood estimator was designed for that purpose. Quast is also useful.
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Brian Bushnell
Quast can use a reference, but it does not need a reference. Without a reference it cannot report a lot of the statistics like indel rate and misassemblies, but it's still useful for other statistics.
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