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Table 3 Method steps

From: Within-host and between-host evolutionary rates across the HIV-1 genome

i Cut the genome sequences into segments
ii Remove recombining sequences
iii Check for the existence of molecular clock signal in the data
iv Balancing datasets (to maximise clock-likeness)
v Select the most appropriate substitution model
vi Compare molecular clock models and coalescent models
vii Run the bayesian phylogeny inference package (BEAST)
viii Analyse substitution rates on internal and external branches