Can we really see the bonds? I was thinking is there really bond present at microscopic level or atoms/molecules are just nearby and are connected with force which is not visible(like gravitational force between earth and sun) and we make bonds just for understanding.
All credit to Zhang et al. "Real-Space Identification of Intermolecular Bonding with Atomic Force Microscopy" Science Vol. 342  no. 6158  pp. 611-614.

Yes, direct images of bonds, not only covalent bonds but also intermolecular hydrogen bonds have been recorded.

It is the electron density that is being observed, covalent and hydrogen bonds involving high electron density between the atoms.

Scanning Tunneling Microscopy can also be utilized to directly observe the electron density of bonds.