degree_of_monotonicity {gpmap} | R Documentation |
Degree of monotonicity of GP map
Description
Functions for computing degree of monotonicity for
gpmap
objects.
Usage
degree_of_monotonicity(gpmap)
degree_of_monotonicity_single(gpmap)
Arguments
gpmap |
A |
Details
degree_of_monotonicity
works for any gpmap
object (values
is matrix of genotypic values)
and calls the internal function
degree_of_monotonicity_single
for each column. degree_of_monotonicity_single
computes
substitution effect, locus weights and per-locus and overall degree of monotonicity as decribed in Gjuvsland et al. (2013).
Value
degree_of_monotonicity
returns the input gpmap
with the following added fields:
degree.monotonicity |
Overall degree of monotonicity for the |
degree.monotonicity.locus |
Data frame with per locus degree of monotonicity for the |
locus.weight |
Data frame with locus weigths |
Author(s)
Arne B. Gjuvsland <arne.gjuvsland@nmbu.no> and Yunpeng Wang <yunpeng.wng@gmail.com>
References
Gjuvsland AB, Wang Y, Plahte E and Omholt SW (2013) Monotonicity is a key feature of genotype-phenotype maps. Front. Genet. 4:216. doi: 10.3389/fgene.2013.00216 [link]
Examples
data(GPmaps)
#Additive GP map is monotone
degree_of_monotonicity(A)
#Pure AxA epistasis map
degree_of_monotonicity(AA)
#two-locus example in Cheverud & Routman (1995)
degree_of_monotonicity(mouseweight)