treetime/treetime.py
def plot_root_to_tip(self, add_internal=False, label=True, ax=None):
        """
        Plot root-to-tip regression

        Parameters
        ----------
        add_internal : bool
           If true, plot inte`rnal node positions

        label : bool
           If true, label the plots

        ax : matplotlib axes
           If not None, use the provided matplotlib axes to plot the results
        """
        Treg = self.setup_TreeRegression()
        if self.clock_model and 'cov' in self.clock_model:
            cf = self.clock_model['valid_confidence']
        else:
            cf = False
        Treg.clock_plot(ax=ax, add_internal=add_internal, confidence=cf, n_sigma=2,
                        regression=self.clock_model)
def plot_root_to_tip(self, add_internal=False, label=True, ax=None):
        Treg = self.setup_TreeRegression()
        if self.clock_model and 'cov' in self.clock_model:
            cf = self.clock_model['valid_confidence']
        else:
            cf = False
        Treg.clock_plot(ax=ax, add_internal=add_internal, confidence=cf, n_sigma=2,
                        regression=self.clock_model)
def plot_root_to_tip ( self , add_internal = False , label = True , ax = None ) : Treg = self . setup_TreeRegression ( ) if self . clock_model and 'cov' in self . clock_model : cf = self . clock_model [ 'valid_confidence' ] else : cf = False Treg . clock_plot ( ax = ax , add_internal = add_internal , confidence = cf , n_sigma = 2 , regression = self . clock_model )
Plot root-to-tip regression

        Parameters
        ----------
        add_internal : bool
           If true, plot inte`rnal node positions

        label : bool
           If true, label the plots

        ax : matplotlib axes
           If not None, use the provided matplotlib axes to plot the results
Plot root - to - tip regression