ReSkmer: modeling repeats allows k-mer-based alignment-free methods to calculate population genomic distances.

Abstract excerpt

Understanding ecological change requires robust, inexpensive methods for monitoring populations. One approach is using low-coverage genome sequencing (genome skimming) to compute genetic diversity via assembly-free, alignment-free, k-mer-based methods to compute genomic distances from shotgun sequences using the intersection of k-mer sets. Skmer extended this approach to genome skims by modeling coverage and...

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