Comparing genomes against randomized genomes

1

Hi there!

I would like to have some advice in comparing a composition between a real genome against a randomized genome.

The question is about the randomization (as a background or Null model). When I randomize(schuffling the genome) a genome for comparing kmer composition It is important to keep the base frequency or a dinucleotide sequence?

I did read some papers but they used a expected value instead!

But I would like to look for a count method just similar to the kmer count method.

Any tip or paper using a similar approach would be appreciated!

Paulo


sequence


genomes

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