a Rclone table with one allele per column, haploid or diploid data.
coords
a table with coordinates of every units in data1.
vecpop
vector, option, vecpop indicates the population name of each unit
of data1, if data1 contains several populations.
If data1 contains only one population, leave vecpop =
listMLL
option, a custom list of MLL.
class1
option, if TRUE, computes distance classes of d equidistant classes.
class2
option, if TRUE, computes distance classes of d classes with
the same number of units pairs each.
d
numeric, number of distance classes.
vecdist
option, a custom vector distance intervals to construct distance classes.
Value
A list of:
clonal_sub_resclonal subrange, i.e. maximum distance between two units
sharing the same MLG/MLL (Alberto et al., 2005)
clonal_sub_tabtable of results with, per class, the number of units pairs,
the min, max and mean distances between pairs and Fr/log(Fr) the fraction of pairs of
ramets sharing the same MLG/MLL
For multi-population data1, a list of lists per population.
Details
By default, d = 10 and clonal_sub computes 10 equidistant
distance classes for all the ramets pairs.
The function proposes 3 others options:
class1fixingdequidistant classes,
class2fixingddistance classes with the same
number of units pairs,
vecdist != NULLallowing the user to give a vector,vecdistof intervals.vecdistmust start with 0 and
end withmax(dist).
References
Alberto et al., 2005, Spatial genetic structure, neighbourhood size and clonal
subrange in seagrass (Cymodocea nodosa) populations.
Arnaud-Haond et al., 2007, Standardizing methods to address clonality in
population studies.