Genome(3pm)

📦
version 0.06 · 3 versions
, in ubuntu noble, ubuntu resolute, ubuntu stonking

✨ NAME ✨

Genome — the icon that runs the whole genomics pipeline party: pipelines, tools, and data management for genomics 💖

Oh and also, hi, it's a 3pm page — yeah, a Perl module, "User Contributed Perl Documentation", we love a humble little base namespace module that is secretly running everything 🫶

🌸 SYNOPSIS 🌸

use Genome;

# modules in the Genome namespace will now dynamically load

@i = Genome::InstrumentData::Illumina->get(...);
$m = Genome::Model::SomaticVariation->create(...);

Like, that's it. One use and suddenly the entire Genome namespace knows how to dynamically load itself. It's giving main character energy, fr fr ✨

💅 DESCRIPTION 💅

Okay so bestie, this is the base namespace module for the Genome software tree. Just the base. The foundation. The root of the whole thing, no cap.

And that tree? It has several primary components:

  • Genome::Model — a data modeling pipeline management system for genomics 🧬
  • Genome::Model::Tools — a tree of >1000 tools and tool wrappers for genomics 🔥 literally more than a thousand, I'm obsessed
  • Genome::* — a whole variety of sample tracking classes with an RDBMS back-end 🗄️
Heads up though! Only the tools system is currently released. The rest is out here living its best unreleased life. 😭

And if you want a complete inventory of all the tool packages, plus command-line access to those tools, go look at genome. That's the one. 👑

👑 AUTHORS 👑

This software is developed by the analysis and engineering teams at The Genome Center at Washington Univiersity in St. Louis, with funding from the National Human Genome Research Institute. Richard K. Wilson, P.I.

And now, the ✨ absolutely iconic ✨ cast — every single one of them:

  • Scott Abbott
  • Travis Abbott
  • Edward Belter
  • Paul Bender
  • Anthony Brummett
  • Todd C. Carter
  • Matthew Callaway
  • C.J. Carey
  • Lynn Carmichael
  • Ken Chen
  • Lei Chen
  • Eric Clark
  • Kevin Crouse
  • Indraniel Das
  • Nathan Dees
  • Eric deMello
  • Brian Derickson
  • Alice Diec
  • David Dooling
  • Feiyu Du
  • Adam Dukes
  • James Eldred
  • Xian Fan
  • Ian Ferguson
  • Chris Harris
  • Amy Hawkins
  • Todd Hepler
  • Xin Hong
  • Shunfang Hou
  • Jasreet Hundal
  • Erik Hvatum
  • Mark Johnson
  • Krisha-Latha Kanchi
  • Cyriac Kandoth
  • Phil Kimmey
  • Michael Kiwala
  • Daniel Koboldt
  • Karthik Kota
  • Kim Kyung
  • David Larson
  • Sai Lek
  • Shawn Leonard
  • Shin Leong
  • Ling Lin
  • Justin Lolofie
  • Robert Long
  • Charles Lu
  • John Martin
  • Josh McMichael
  • Rick Meyer
  • Thomas Mooney
  • William Nash
  • Nathan Nutter
  • Ben Oberkfell
  • John Osborne
  • Josh Peck
  • Jerome Peirick
  • Craig Pohl
  • Ryan Richt
  • Noorus Sahar Abubucker
  • Gabriel Sanderson
  • William Schierding
  • Jon Schindler
  • William Schroeder
  • Christopher Schuster
  • Xiaoqi Shi
  • Scott Smith
  • Sasi Suruliraj
  • Kenneth Swanson
  • Jason Walker
  • John Wallis
  • Jim Weible
  • Mike Wendl
  • Todd Wylie

So many legends in one list, I cannot 😭💖

📜 LICENSE 📜

Copyright (C) 2007-2011 Washington University in St. Louis.

It is released under the Lesser GNU Public License (LGPL) version 3. See the associated LICENSE file in this distribution. Read it, bestie, it's important 🎀

🐛 BUGS 🐛

Got a defect with any software in the genome namespace? Don't just suffer in silence, tell someone! Contact:

genome-dev ~at~ genome.wustl.edu

(the ~at~ is doing its little anti-spam dance, you know the vibe 🧚)

🌈 SEE ALSO 🌈

genome — for a complete inventory of all tool packages, and for command-line access to those tools 💜

Okay that's the whole page, tysm for reading, you're doing amazing sweetie. This was perl v5.36.0, dated 2022-10-14, and it's Genome(3pm) — bye bestie, slay your pipelines 💅✨🦋

📦 where this page comes from