statistics(1)

📦
version 3.3.1p2 · 7 versions
, in ubuntu stonking

💖 statistics(1) 💖

okay bestie, so this is statistics — part of The Computational Morphometry Toolkit (CMTK, she's iconic). Pull up a chair, we're doing math on your pixels. 🎀

✨ NAME ✨

statistics — image statistics, bestie. That's it, that's the name.

🌸 SYNOPSIS 🌸

statistics [options] ImageFile0 [ImageFile1 ...]

like, you give her one image, or several, or honestly as many as you want (that's what the ... is doing, she's flexible 💅)

🦋 DESCRIPTION 🦋

Statistical computations on image pixel intensities — i.e., means and standard deviations. That's the whole vibe. You feed her an image, she tells you numbers about it. No cap. ✨

👑 OPTIONS 👑

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

like, every CMTK tool has these. they're the group chat regulars. 🫶

  • --help — Write list of basic command line options to standard output. Your little cheat sheet, go off.
  • --help-all — Write complete list of basic and advanced command line options to standard output. The director's cut. 🔥
  • --wiki — Write list of command line options to standard output in MediaWiki markup. For when you're documenting and want it wiki-pretty.
  • --man — Write man page source in 'nroff' markup to standard output. Manpage-ception, love that for us.
  • --version — Write toolkit version to standard output.
  • --echo — Write the current command line to standard output. She repeats you back, affectionate behavior fr fr.
  • --verbose-level <integer> — Set verbosity level. Spill more tea, or less, you decide.
  • --verbose, -v — Increment verbosity level by 1 (deprecated; supported for backward compatibility). ⚠️ lowkey deprecated, but she keeps it around for the old heads.
  • --threads <integer> — Set maximum number of parallel threads (for POSIX threads and OpenMP). Make her multitask, slay.

🍓 Main Options

this is where the actual main character energy lives ✨

  • --label, -l — Interpret voxel values as labels. Not numbers you math on, just names for things, iykyk.
  • --gray, -g — Interpret voxel values as gray values (default) [This is the default]. So if you don't say anything, this is what she's doing. 💅
  • --log, -L — Apply log() function to data. Squish those numbers logarithmically.
  • --exp, -e — Apply exp() function to data. Opposite direction, exponential it up.
  • --num-bins <integer>, -n <integer> — Number of histogram bins. [Default: 256]. Two hundred and fifty six bins, diva behavior.
  • --column, -C — Write statistics in column format rather than line format. Vertical girlies, this one's for you.
  • --e-notation, -E — Write floating point numbers in #e# notation (i.e., 1e-3 instead of 0.001). Tiny numbers, but ✨fancy✨.
  • --mask <string>, -m <string> — Analyze region based on binary mask file [Default: disabled]. Only look where you tell her to look, boundaries bestie.
  • --Mask <string>, -M <string> — Analyze regions separately based on mask file (label field). [Default: NONE]. Note the capital M, she's a different option entirely, don't get them confused girlie. 😭
  • --mask-output-all-up-to <integer> — Output results for all mask values up to given value, even such that do not actually appear in the mask. [Default: 0]. She'll report on mask labels that never even showed up. Thorough to a fault. 🫶
  • --percentile <double>, -p <double> — Add value to list of percentile to compute. You can stack these, one per percentile you're obsessed with.

💀 AUTHORS 💀

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

the whole squad came together for this one, we love a collaborative era 🌈

📜 LICENSE 📜

http://www.fsf.org/licensing/licenses/gpl.html

🐛 BUGS 🐛

Report bugs at http://nitrc.org/projects/cmtk/

like, if something's broken, tell them, don't just suffer in silence bestie 😭

💖 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.

funding lore!! 🧚 the way that a whole toolkit gets built because people believed in it 💜

ok that's the whole page, no skips, every flag accounted for. now go run it on your images and tell me what the standard deviation said. 🎀

and that's a wrap on CMTK 3.3.1p2, dated Jun 24 2026 — statistics(1), out. 💅✨🦋

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