Pairwise Distance Estimation with TKF91 and TKF92 Model


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Documentation for package ‘TKF’ version 0.0.8

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AACharacterSet AA, DNA, RNA character set
AAGapCharacterSet AA, DNA, RNA character set
AAToInt AA, DNA, RNA character set
AmbiguousAACharacterSet AA, DNA, RNA character set
AmbiguousAAGapCharacterSet AA, DNA, RNA character set
Dayhoffn PAM and Dayhoff matrices calculation
DNACharacterSet AA, DNA, RNA character set
DNAGapCharacterSet AA, DNA, RNA character set
GONNET The GONNET AA matrix
GONNETBF The GONNET AA matrix
optim.phylo.wls Phylogeny inference using the weighted least squares method
PAMn PAM and Dayhoff matrices calculation
RNACharacterSet AA, DNA, RNA character set
RNAGapCharacterSet AA, DNA, RNA character set
TKF91 Evolutionary distance estimation with TKF91 model
TKF91Pair Evolutionary distance estimation with TKF91 model
TKF92 Evolutionary distance estimation with TKF92 model
TKF92HG Evolutionary distance estimation with TKF92 model considering the regional heterogeneity of substitution rates
TKF92HGPair Evolutionary distance estimation with TKF92 model considering the regional heterogeneity of substitution rates
TKF92Pair Evolutionary distance estimation with TKF92 model