I'm trying to perform a QSPR research and for it I need to generate a library of compounds. Now I'm using a plugin for MarvinSkectch for enumerating Markush structures but it doesn't work properly (maybe I misuse it). So I'm looking for a free/trial software that allows to generate compound library based on general structure.
Upon the request I'm sharing the solution I came to.
So, as I mentioned in the comments, I've finally make MarvinSkectch Markush enumeration feature to work properly. I don't really know what I've been doing wrong, as it just started working as intended. ChemAxon have a small tutorial on this feature. ChemAxon tutorial