predict5_2: Produce model estimated (p=5, topology=2) y-coordinates of...

In PauloMoraMartinez/Genomescope2.0_: Reference-free profiling of genomes

Produce model estimated (p=5, topology=2) y-coordinates of the kmer spectra given the kmer size, repetitiveness, average polyploid kmer coverage, bias, and x-coordinates of the kmer spectra.

Description

Produce model estimated (p=5, topology=2) y-coordinates of the kmer spectra given the kmer size, repetitiveness, average polyploid kmer coverage, bias, and x-coordinates of the kmer spectra.

Usage

predict5_2(raaaab, raabbc, raabcd, rabcde, k, d, kmercov, bias, x)

Arguments

raaaab, raabbc, raabcd, rabcde	Numerics corresponding to the nucleotide heterozygosities aaaab, aabbc, aabcd, and abcde respectively.
k	An integer corresponding to the kmer length.
d	A numeric corresponding to the repetitiveness.
kmercov	A numeric corresponding to the estimated average kmer coverage of the polyploid genome.
bias	A numeric corresponding to the overdispersion of the negative binomial distribution.
x	An integer vector of the x-coordinates of the histogram (after filtering out low coverage errors and high coverage kmers).

Value

A numeric vector of the model estimated y-coordinates of the kmer spectra.

PauloMoraMartinez/Genomescope2.0_ documentation built on April 5, 2022, 12:02 a.m.