Magnetic stimulation of brain and spinal roots provides a non-invasive evaluation of nervous propagation as well as of motor cortex excitability in healthy subjects and in patients affected by neurological diseases (i.e. multiple sclerosis, stroke, Parkinson's disease, myelopathies etc.). Motor areas can be reliably mapped and short- and long-term 'plastic' changes of neural connections can be studied and monitored over time. By evaluating excitatory and inhibitory phenomena following transcranial stimuli, the mechanisms of action of different drugs, including antiepileptics, can be studied. Moreover, transcranial stimulation of non-motor brain areas represents a probe for the evaluation of lateralized hemispheric properties connected with higher cortical functions. Recent studies suggest a therapeutic role of repetitive magnetic stimulation in psychiatric disorders.