dot-check_conj_input: Check conjugation rate estimation input
In JSHuisman/conjugator: Estimate Plasmid Conjugation Rates

Check conjugation rate estimation input

1	.check_conj_input(data, method)

data

Dataframe. Required columns vary depending on the method used to estimate the conjugation rates. The following columns are typically required: D.t, R.t, T.t are final population sizes; D.0, R.0 are initial pop sizes; psi.D, psi.R, psi.T are growth rates; t is the time of measurement (assumes start at 0). Optional columns: T.0, psi.max (for the Simonsen method).

method

String or list of strings. Describes method(s) used to estimate the conjugation rate. Takes the following values:

SM (Simonsen Method): The population growth rate can be supplied with psi.N or psi.max; otherwise the method will choose the maximum among psi.D, psi.R, psi.T;
ASM (Approximate Simonsen Method): ;
TD: T/D;
T_DR: T/DR;
T_RT: T/(R+T): The fraction of plasmid-carrying recipients;
Dionisio: T/√{DR};
Gama: log10(T/√{DR}).