Nothing
get.raxml.siteLikelihoods <-
function(x) {
## gets likelihoods from the RAxML_perSiteLLs file
lnL <- readLines(x)
lnL <- strsplit(lnL[2:length(lnL)], "\t")
names(lnL) <- unlist(lapply(lnL, function(x) x[1]))
lnL <- unlist(lapply(lnL, function(x) x[2]))
lnL <- t(sapply(strsplit(lnL, " "), as.numeric)) # this is a matrix with trees as rows, site lnL as columns
return(lnL)
}
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