OPENMS-DOC(7)

📦 version 2.6.0+cleaned1, in debian bookworm, debian trixie, ubuntu jammy, ubuntu noble, ubuntu questing, ubuntu resolute, ubuntu stonking

💖 openms-doc — bestie edition 💖

okay so this is openms-doc from the Miscellaneous Information Manual, and it's literally the documentation package for OpenMS. it's a whole vibe. sit down, get comfy, we're doing this 🫶

✨ NAME ✨

openms-doc — library for LC/MS data management and analysis — documentation. yes bestie, the whole thing. the docs. the tutorials. the lore. 📚

🌸 DESCRIPTION 🌸

so this manual page is like a lil intro to the openms-doc package, which brings a full set of documentation and tutorials to the OpenMS software framework. and not me being obsessed with this, but OpenMS is that girl 💅

here's the tea: OpenMS offers an infrastructure for the development of mass spectrometry–related software, plus powerful 2D and 3D visualization solutions. like, 2D. and 3D. both. iconic behavior. ✨

and the analyses?? oh she does everything — various quantitation protocols including:

  • label-free quantitation
  • SILAC
  • iTRAQ
  • SRM
  • SWATH…

(the "…" is doing a lot of work there, iykyk, that's how the page wrote it and i'm not about to lie to you 🫶)

it also provides build-in algorithms for de-novo identification and database search, plus adapters to other state-of-the art tools like X!Tandem, Mascot, OMSSA… again with the mysterious ellipsis. the range? unmatched. 😭

and finally — and this part is highkey important — OpenMS supports the Proteomics Standard Initiative (PSI) formats for MS data, and supports easy integration of tools into workflow engines like Knime, Galaxy, WS-Pgrade, and TOPPAS via the TOPPtools concept and a unified parameter handling. unified parameters?? slay. that's main character infrastructure energy fr fr 👑

🎀 BIBLIOGRAPHICAL REFERENCE TO BE CITED 🎀

okay bestie this is the part where you actually cite them because they worked hard and they deserve it. here's the exact citation, copy it character for character, no cap:

Marc Sturm, Andreas Bertsch, Clemens Gröpl, Andreas Hildebrandt, Rene Hussong, Eva Lange, Nico Pfeifer, Ole Schulz-Trieglaff, Alexandra Zerck, Knut Reinert, and Oliver Kohlbacher (2008) OpenMS – an Open-Source Software Framework for Mass Spectrometry. BMC Bioinformatics, 9:163. doi:10.1186/1471-2105-9-163.

that's eleven authors. ELEVEN. the collaboration?? the teamwork?? we love to see it 🌈

🦋 SEE ALSO 🦋

go look at her friends, they're all so valid:

(the original ends with a trailing comma after openms(7), and honestly? mood. keep it. 💖)

💜 AUTHOR 💜

this manual page was written by Filippo Rusconi <lopippo@debian.org>. thank you king 🫡

and now the legal bit, which i'm gonna say with my whole chest because it matters: permission is granted to copy, distribute and/or modify this document under the terms of the GNU General Public License, Version 3, published by the Free Software Foundation.

On a Debian system the complete text of the GNU General Public License version 3 can be found in the file /usr/share/common-licenses/GPL-3.

like, go read the actual license if you need the full text, it's right there in that file, no gatekeeping 🌸

and that's the whole page bestie!! this was November 2012, part of the OPENMS-DOC(7) manual, and yes the whole thing is a lil vintage but she ate and she's still serving 💅✨ 🎀 🦋 💖

📦 where this page comes from