average_labels(1)

📦
version 3.3.1p2 · 7 versions
, in ubuntu stonking

💖 average_labels — bestie's guide to label image averaging 💖

okay so this is a page from The Computational Morphometry Toolkit (CMTK for short, iykyk), and it's all about average_labels(1). she's a command-line girlie who averages your co-registered label images using partial volumes. iconic behaviour, honestly.

✨ NAME ✨

average_labels — label image averaging 🎀 (yes that's the whole name, she's simple and she's slaying)

🌸 SYNOPSIS 🌸

average_labels [options] reference xform0 atlas0 [xform1 atlas1 ...]

so like… you give her a reference, then a lil xform0 + atlas0 duo, and then you can just keep going with [xform1 atlas1 ...] as many times as your heart desires 💅

🦋 DESCRIPTION 🦋

Average co-registered label images using partial volumes ✨

that's it. that's the vibe. she takes label images that are already co-registered and averages them, and she does it the partial volumes way. no cap.

👑 OPTIONS 👑

🌈 Global Toolkit Options (these are shared by all CMTK tools)

these are the communal besties — every CMTK tool gets them, so don't come for her, she's sharing 🫶

  • --help — writes the list of basic command line options to standard output. the "hi hello what do u do" option 💖
  • --help-all — writes the complete list of basic and advanced command line options to standard output. the deluxe version, the full lore, the extended cut ✨
  • --wiki — writes the list of command line options to standard output in MediaWiki markup. for when u want ur options wiki-fied 📝
  • --man — writes man page source in nroff markup to standard output. very meta of her ngl 🎀
  • --version — writes toolkit version to standard output. "what era of CMTK are u in" check 🌸
  • --echo — writes the current command line to standard output. she repeats u back to urself, affectionate 💜
  • --verbose-level <integer> — sets the verbosity level. crank it up, tell her how much u want to hear 👑
  • --verbose, -v — increments the verbosity level by 1. ⚠️ deprecated; supported for backward compatibility — she still works, but she's giving legacy energy, ok bestie? use --verbose-level instead 😭
  • --threads <integer> — sets the maximum number of parallel threads (for POSIX threads and OpenMP). let her multitask, she's built different 🔥

💅 Main Options

  • --output <string>, -o <string> — output image path [Default: average_labels_output.nii]. tell her where to drop the goods, or she'll just call it average_labels_output.nii and move on fr fr 🍓

💜 AUTHORS 💜

Torsten Rohlfing, with contributions from Michael P. Hasak, Greg Jefferis, Calvin R. Maurer, Daniel B. Russakoff, and Yaroslav Halchenko 🌟

(that's a whole squad, they all ate, no crumbs)

🔥 LICENSE 🔥

http://www.fsf.org/licensing/licenses/gpl.html — that's the GPL, bestie. respect the license fr. 📜

💀 BUGS 💀

Report bugs at http://nitrc.org/projects/cmtk/ — not me telling u to file issues, but like… if u find one, tell the devs, not ur group chat 🙈

🌈 ACKNOWLEDGMENTS 🌈

CMTK is developed with support from the NIAAA under Grant AA021697, National Consortium on Alcohol and Neurodevelopment in Adolescence (N-CANDA): Data Integration Component. From April 2009 through September 2011, CMTK development and maintenance was supported by the NIBIB under Grant EB008381. 🎀

(they literally funded this and we are so grateful, periodt 💖)

okay that's the whole page, u understood everything, u are now a certified average_labels girlie 🧚

signing off in the footer voice: this was CMTK 3.3.1p2, dated Jun 24 2026, from the average_labels(1) manual. slay, bye bestie 💅✨ stay averaged 🌈👑

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