Here's a general process to do this:

Run SwissDock: Start by running your docking simulations in SwissDock to predict the binding of ligands to a protein target.

Export the Results: After the SwissDock simulations are completed, you can typically export the results in a format that is compatible with molecular visualization software like Discovery Studio Visualizer. SwissDock may provide options to export the results in common file formats, such as PDB (Protein Data Bank) or MOL2 (Molecular 3D Structure) files.

Open in Discovery Studio Visualizer: Launch Discovery Studio Visualizer on your computer. Use the "Open" or "Import" feature in Discovery Studio Visualizer to load the exported SwissDock results. This usually involves selecting the PDB or MOL2 files containing the protein-ligand complex structures.

Analyze Ligand Interactions: Once you have imported the SwissDock results into Discovery Studio Visualizer, you can analyze the ligand interactions with the protein target. You can visualize the binding modes, hydrogen bonds, hydrophobic interactions, and other molecular interactions between the ligands and the protein.

Visualize and Interpret: Use the visualization and analysis tools in Discovery Studio Visualizer to examine the docking results, study the ligand-protein interactions, and gain insights into the binding affinity and stability of the complexes.

As additional information.

The challenge is "small peptides up to 6 AA", it is a peptide-linking. Both of them ChimeraX (Chimera) and PyMOL will "convert" it to part of protein.