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Old 01-12-2015, 11:35 PM   #1
skblazer
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Location: Massachusetts

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Default How to read information from a kmer-distribution plot before denovo assembly

Hi guys,

I'm a dummy to this field. I know people always plot the kmer-distribution (using illumina hiseq reads or etc.) and can get a lot of information from the plot, e.g., the estimated genome size, repeat content, and heterozygous rate?

Would you please help give a tutorial how to read (or calculate) these information steps by steps, assuming we've know the major peak, left or right secondary peak, and mer-length?

Thanks
SK
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Old 01-13-2015, 09:19 AM   #2
Brian Bushnell
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SK,

Try looking at this thread, and let me know if the explanation is insufficient:

http://seqanswers.com/forums/showthread.php?t=48375
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