dose2domDev | R Documentation |
Converts a dosage matrix into a matrix of centered dominance deviations.
This sets up the "classical" (aka "Statistical") partition of additive dominance in terms of breeding values and dom. deviations.
See function dose2domDevGenotypic
to set-up the "genotypic" (aka "biological") partition in terms of genotypic effects.
See Vitezica et al. 2013.
Also see Varona et al. 2018. https://doi.org/10.3389/fgene.2018.00078
dose2domDev(M)
M |
dosage matrix. Assumes SNPs in M coded 0, 1, 2 (requires rounding dosages to integers). M is Nind x Mrow, numeric matrix, with row/columanes to indicate SNP/ind ID |
Other helper:
backsolveSNPeff()
,
centerDosage()
,
crosses2predict()
,
dose2domDevGenotypic()
,
effectsArray2list()
,
genmap2recombfreq()
,
genoVarCovarMatFunc()
,
getAF()
,
getMAF()
,
getPropHom()
,
intensity()
,
kinship()
,
maf_filter()
,
quadform()
,
remove_invariant()
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