Function to calculate recombination frequencies from distance based on three mapping functions. Morgan's, which assumes a linear relationship between distance and recombination frequency (inaccurate for large distances); Haldane's, the most common function, accounting for possible double recombinations between distant markers; and Kosambi's, which accounts for intereference between nearby recombinations. Kosambi's is used by default, as it tends to be the most biologically accurate.
r_from_dist(d, method = "kosambi")
numeric, distance vector in cM.
character, one of the following: kosambi, haldane, morgan. Partial matching is allowed.
a numeric vector of recombination frequencies.
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d <- 1:100 kos <- r_from_dist(d, method = "k") hal <- r_from_dist(d, method = "h") mor <- r_from_dist(d, method = "m") plot(d,mor,ylim = range(c(kos,hal,mor)),type = "l", col = 1) points(d,hal,type = "l", col = 2) points(d, kos, type = "l",col = 3) legend("topright", legend = c("Morgan","Haldane","Kosambi"),col = 1:3,lty = 1)
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