Description Usage Arguments Value Author(s) References Examples
Monte Carlo procedure to ensure that the sets of loci (sample_units
) or
units (sample_loci
) provide enough power to discriminate MLG
(MultiLocus Genotypes).
1 2 3 4 |
data1 |
a |
haploid |
logical, option, |
vecpop |
vector, option, |
nbrepeat |
numeric, the number of sampling. |
He |
option, if |
graph |
option, if |
export |
option, if |
bar |
option, if |
a list of:
res_MLG |
with min, max, mean and SE (Standard Error) of MLG, |
res_alleles |
with min, max, mean and Satterthwaite approximation of SE of the
number of alleles and of |
raw_He |
a table with number of loci/units sampled in column and each re-sampling in row for He, |
raw_MLG |
a table with number of loci/units sampled in column and each re-sampling in row for MLG number, |
raw_all |
a table with number of loci/units sampled in column and each re-sampling in row for alleles number. |
If data1
is a multi-population table, a list of lists for each population.
Creator/Author: Diane Bailleul <diane.bailleul.pro@gmail.com>
Author: Sophie Arnaud-Haond <sophie.arnaud@ifremer.fr>
Contributor: Solenn Stoeckel
The R implementation of RClone
was written by Diane Bailleul.
The design was inspired by GenClone program described in Arnaud-Haond & Belkhir (2007).
Arnaud-Haond et al., 2007, Standardizing methods to address clonality in population studies.
1 2 3 4 5 6 7 8 9 10 | data(posidonia)
sample_loci(posidonia, nbrepeat = 10, graph = TRUE)[[2]]
sample_units(posidonia, nbrepeat = 10, graph = TRUE, bar = TRUE, He = TRUE)[[1]]
#Graph :
res <- sample_loci(posidonia, nbrepeat = 100)
boxplot(res$raw_MLG, range = 3, ylab = "Number of multilocus genotypes",
xlab = "Number of loci sampled")
title(paste("Genotype accumulation curve for", "posidonia"))
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