In this study, we analyze radiation images of muscle structure of mice soleus muscles using radiation source‐based microtomography and nanotomography. Soleus muscle samples were collected for analysis from 8‐week‐old male Institute of Cancer Research mice. First, phase‐contrast X‐ray microtomography was employed in these experiments. Then to obtain images with excellent contrast, imaging was performed using monochromatic light with excellent transmission power. To analyze additional muscle structures in higher magnification images than these images, nanotomography was performed, which facilitated obtaining high‐magnification and high‐resolution images. Muscle tissue microstructures were confirmed through three‐dimensional images obtained from phase‐contrast X‐ray microtomography. Thus, the muscle tissue's overall shape at microscopic level can be captured. Additionally, a single muscle fiber was examined using hard X‐ray nano‐imaging, through which we could observe the alignment of countless myofibrils, that is, actin and myosin filaments in the muscle fibers. Thus, the methodology adopted here proved to be advantageous in analyzing the muscle tissue's overall structure with microtomography and in observing the myofibrils in detail using nanotomography.