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  • plantae
    started a topic estimate genome size through kmer analysis

    estimate genome size through kmer analysis

    hi, all

    I have try to use the formula below to estimate genome sizes:

    Coverage=(peak k-mer)×L/(L-K+1)

    Genome size=total_bases/Coverage

    But for some dataset, I got several duplication reads, should I exclude these duplicated reads from the dataset before kmer analysis?

    The genome contain more than 70% repeats, at 100X depths, how much duplication reads would be expected?

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