marrink-lab / polyply_1.0

Generate input parameters and coordinates for atomistic and coarse-grained simulations of polymers, ssDNA, and carbohydrates
Apache License 2.0
126 stars 22 forks source link

Implementation of the GEN_FF workflow #383

Open fgrunewald opened 2 months ago

fgrunewald commented 2 months ago

This is the preliminary implementation of the gen_ff workflow. To generate ff-parameters from an itp file use:

polyply gen_ff -f <your_itp_file> -i <itp/top file> -s <cgsmiles_str> -o output.ff -c <resname>:<charge> 

You can then generate an arbitrary polymer with:

polyply gen_params -f output.ff -seq <cgsmiles_str> -o out.itp

LICENSE NOTICE

This code is currently licensed under PolyForm Noncommercial License 1.0.0, meaning it can be adopted shared and used as long as not for commercial purposes.