Please use this identifier to cite or link to this item: https://hdl.handle.net/2445/222966
Title: Gromologist: A GROMACS-oriented utility library for structure and topology manipulation
Author: Wieczór, Miłosz
Czub, Jacek
Orozco López, Modesto
Keywords: Computer science applications
Computer science, software engineering
Software
Gromacs
Molecular dynamics
Molecular modelin
Issue Date: 12-Mar-2025
Abstract: Despite the increasing automation of workflows for the preparation of systems for molecular dynamics simulations, the custom editing of molecular topologies to accommodate non-standard modifications remains a daunting task even for experienced users. To alleviate this issue, we created Gromologist, a utility library that provides the simulation community with a toolbox of primitive operations, as well as useful repetitive procedures identified during years of research. The library has been developed in response to users' feedback, and will continue to grow to include more use cases, thorough automatic testing and support for a broader spectrum of rare features. The program is available at gitlab.com/KomBioMol/gromologist and via Python's pip.
Note: https://doi.org/10.1016/j.softx.2025.102118
It is part of: Softwarex, 2025, 30, 102118
URI: https://hdl.handle.net/2445/222966
Related resource: https://doi.org/10.1016/j.softx.2025.102118
ISSN: Wieczor, Milosz; Czub, Jacek; Orozco, Modesto (2025). Gromologist: A GROMACS-oriented utility library for structure and topology manipulation. Softwarex, 30(), 102118-. DOI: 10.1016/j.softx.2025.102118
Appears in Collections:Articles publicats en revistes (Bioquímica i Biomedicina Molecular)
Articles publicats en revistes (Institut de Recerca Biomèdica (IRB Barcelona))

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