We present Icolos, a workflow manager written in Python as a tool for automating complex structure-based workflows. Icolos can be used as a standalone tool, for example in virtual screening campaigns, or can be used in conjunction with deep learning-based molecular generation facilitated for example by REINVENT, a previously published de novo design package. In this publication, we focus on the internal structure and general capabilities of Icolos, using docking experiments as an illustration. The source code is freely available at https://github.com/MolecularAI/Icolos under the Apache 2.0 licence. Tutorial notebooks containing minimal working examples can be found at https://github.com/MolecularAI/IcolosCommunity.
Manual for docking workflow steps