degree_of_monotonicity: Degree of monotonicity of GP map
In gpmap: Analysing and Plotting Genotype-Phenotype Maps

Description Usage Arguments Details Value Author(s) References Examples

Functions for computing degree of monotonicity m for gpmap objects.

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  degree_of_monotonicity(gpmap) 
  degree_of_monotonicity_single(gpmap)

gpmap

A gpmap object

degree_of_monotonicity works for any gpmap object (values is (3^N)xK 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).

degree_of_monotonicity returns the input gpmap with the following added fields:

`degree.monotonicity`	Overall degree of monotonicity for the K GP maps
`degree.monotonicity.locus`	Data frame with per locus degree of monotonicity for the K GP maps
`locus.weight`	Data frame with locus weigths

Arne B. Gjuvsland <arne.gjuvsland@nmbu.no> and Yunpeng Wang <yunpeng.wng@gmail.com>

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]

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)