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\label{fig:cellCycleFucci}  \textbf{Comparison of cell cycle phase inference with the Fucci system.}  \textbf{A.} Cell cycle phase $\phi_F(t)$ (solid blue) inferred from the Fucci signal (dotted red and green). The model is shown in solid red and green and the amplitude in dashed gray. The G1 and S/G2/M inferred from the cell cycle phase $\phi(t)$ $\phi_F(t)$  is shown bellow the trace. The time of transition between G1 and S is defined as $t_{G1/S} : \phi(t_{G1/S})=0.4\pi$, \phi_F(t_{G1/S})=0.4\pi$,  corresponding to the rise of the green signal. \textbf{B.} Cell cycle phase $\phi_N(t)$ (solid blue) inferred from the nuclear area (dotted black). The model is shown in solid red and other curves are as in panel A.  \textbf{C.} Scatter plot of $\phi_N(t)$ and $\phi_F(t)$. The colormap show the data density. The synchronization index  $R(\phi_N - \phi_F) = 0.83$. \phi_F)$ is equal to $0.83$.  The high density around the division (0 and 1) shows that the HMM is able to detect divisions with high accuracy in both conditions. \textbf{D.} Scatter plot of S/G2/M duration inferred from the nuclear area and the Fucci signal. Duration are defined as in panel A. Mean duration is $14.4$h and $R^2 = 0.57$. Inset: scatter plot of G1 durations. Mean duration is $10.3$h and $R^2 = 0.37$.