Actually no, you don't have such options in SAP2000. Shear deformations will affect flexural behaviour by default, so one could assume it's a "Timoshenko beam" by default the one in SAP.However it's NOT a Timoshenko beam, it's a different kind of theory, which coud be applied in both short and long members and be used in dynamic analysis accordingly.
From the manual:
"Biaxial bending, torsion, axial deformation, and biaxial shear are all accounted for in the beam-column formulation (Bathe and Wilson, 1976) which characterizes frame behavior."
What sap uses is in this book:
Bathe, K.J. and E. L. Wilson, 1976. Numerical Methods in Finite Element Analysis, Prentice-Hall, Englewood Cliffs, N.J.