calc.dist | R Documentation |
Calculate the simple distance matrix, by the proportion of mismatches, for a RAPD data set.
calc.dist(dat)
dat |
A matrix of size (n.ind x n.mar) containing RAPD phenotypes, with 1 indicating the presence of a band and 0 indicating absence. |
For each pair of individuals, we calculate the proportion of RAPD markers (among those where both individuals have complete data) at which one individual shows a band and the other doesn't.
A symmetric matrix of dimension (n.ind x n.ind), containing the distances between individuals.
Karl W Broman broman@wisc.edu
BL Apostol, WC Black IV, BR Miller, P Reiter, BJ Beaty (1993) Estimation of the number of full sibling families at an oviposition site using RAPD-PCR markers: applications to the mosquito Aedes aegypti. Theor Appl Genet 86:991-1000.
llrdist
, fingers
data(aedes)
d <- calc.dist(aedes)
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