Molywood: streamlining the design and rendering of molecular movies

• DOI: 10.1093/bioinformatics/btaa584
• Publication Date: 2020-06-15T19:11:41Z
• Authors: Miłosz Wieczór; Adam Hospital; Genis Bayarri; Jacek Czub; Modesto Orozco
• Keywords: 0301 basic medicine; 03 medical and health sciences; Bioinformàtica; Bioinformatics; Molecular biology; Motion Pictures; Molecular Dynamics Simulation; Applications Notes; Software; Biologia molecular; Workflow

Abstract

Motivation High-quality dynamic visuals are needed at all levels of science communication, from the conference hall to the classroom. As scientific journals embrace new article formats, many key concepts—particularly, in structural biology—are also more easily conveyed as videos than still frames. Notwithstanding, the design and rendering of a complex molecular movie remain an arduous task. Here, we introduce Molywood, a robust and intuitive tool that builds on the capabilities of Visual Molecular Dynamics (VMD) to automate all stages of movie rendering.

Results Molywood is a Python-based script that uses an integrated workflow to give maximal flexibility in movie design. It implements the basic concepts of actions, layers, grids and concurrency and requires no programming experience to run.

Availability and implementation The script is freely available on GitLab (gitlab.com/KomBioMol/molywood) and PyPI (through pip), and features an extended documentation, tutorial and gallery hosted on mmb.irbbarcelona.org/molywood.