VORONOTA(1)

💖 VORONOTA 💖

okay bestie, sit down, hydrate, because we're about to talk about Voronota — that's the manual page VORONOTA(1) — and it is literally the software for Voronoi tessellation-based analysis of macromolecular structures. no cap. 🦋

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✨ NAME ✨

Voronota — software for Voronoi tessellation-based analysis of macromolecular structures. that's the whole vibe. 🎀

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🌸 SYNOPSIS 🌸

voronota command [options]...

voronota-voromqa [options]...

voronota-cadscore [options]...

voronota-contacts [options]...

voronota-volumes [options]...

voronota-pocket [options]...

voronota-membrane [options]...

look at all those little wrapper scripts, so organized, we love a structured queen 👑

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💅 DESCRIPTION 💅

okay so. when you're analyzing macromolecular structures you often need a really comprehensive definition of atomic neighborhoods — like, not just "vibes, roughly near each other" but an actual rigorous answer to who is next to whom. and that definition can be based on the Voronoi diagram of balls, where every single ball represents an atom with some van der Waals radius. 🧚

Voronota is the software tool for finding all the vertices of that Voronoi diagram of balls. those vertices correspond to the centers of the empty tangent spheres defined by quadruples of balls. fr fr, quadruples. and Voronota is especially suitable for processing three-dimensional structures of biological macromolecules such as proteins and RNA. proteins and RNA bestie!! the whole biomechanical moment 💜

since version 1.2 — so we're talking glow-up era — Voronota also uses those Voronoi vertices to construct inter-atom contact surfaces and solvent accessible surfaces. and it provides tools to query contacts, generate contacts graphics, compare contacts, and evaluate the quality of protein structural models using contacts. it's giving full-service. 👑

if you run Voronota without any parameters, it displays the list of all available Voronota commands. like a little menu. a menu of power. 🔥

and command help shows up when the --help command line option is present, for example:

voronota calculate-vertices --help

using the --help option without a specific command results in printing help for all commands:

voronota --help

(that's a lot of help, but honestly? same, we all need help sometimes 🫶)

there are also several Voronota wrapper scripts, and their interfaces can be displayed similarly:

voronota-voromqa --help
voronota-cadscore --help
voronota-contacts --help
voronota-volumes --help
voronota-pocket --help
voronota-membrane --help

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🦋 SEE ALSO 🦋

• the README file distributed with Voronota contains more detailed documentation. (yes, go read it, it's not like other docs 💖)
• the Voronota source code and all the supporting files may be downloaded from <https://github.com/kliment-olechnovic/voronota/releases>.

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👑 AUTHORS 👑

Kliment Olechnovic.

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and that's the whole page, bestie — shoutout to Voronota(1) for coming to us back in January, 2021, we are obsessed. periodt. 💖✨🎀🌈⭐