lsba(1)

📦
version 3.3.1p2 · 7 versions
, in ubuntu stonking

💖 lsba — it's giving Local Voting 💖

okay so bestie, welcome to lsba(1) from the Computational Morphology Toolkit — the CMTK girlies know 💅

✨ NAME ✨

lsba — Local voting. that's it, that's the whole vibe 🎀

🌸 SYNOPSIS 🌸

lsba [options] targetImage atlasIntensity1 atlasLabels1 [atlasIntensity2
atlasLabels2 [...]]

like. you give it a target image and then pairs of atlas intensities + atlas labels, and you can keep stacking pairs forever. endless slay 🔥

🦋 DESCRIPTION 🦋

so what this actually does: it takes a bunch of binary segmentations — specifically ones coming from atlases that are co-registered and reformatted — and it combines them all together using locally-weighted Shape-Based Averaging. that's the whole thing. it's a voting situation but make it local and make it shaped. periodt 🫶

👑 OPTIONS 👑

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

these ones are the communal property of every CMTK tool, no cap:

  • --help — dumps the list of basic command line options to standard output. the "help me bestie" button 💖
  • --help-all — same but complete: basic and advanced options, all of them, to standard output. the deluxe version ✨
  • --wiki — writes the command line options list to standard output in MediaWiki markup. for the wiki girlies 📝
  • --man — writes the man page source in 'nroff' markup to standard output. very meta of it 🎀
  • --version — writes the toolkit version to standard output. identity check ✅
  • --echo — writes the current command line to standard output. it's repeating you back, iconic 💅
  • --verbose-level <integer> — sets the verbosity level. you pick a number, that's your volume knob 🔥
  • --verbose, -v — bumps the verbosity level up by 1. heads up though: this one is deprecated — it's only still here for backward compatibility, so ngl, maybe use the other one 🙈
  • --threads <integer> — sets the max number of parallel threads (for POSIX threads and OpenMP). multitasking queen 👑

🍓 Input Options

  • --set-padding-value <double> — sets the padding value for the input intensity images. any pixels with this exact value get ignored. [Default: disabled]

💜 Label Combination Options

  • --patch-radius <none> — the radius of the image patch, in pixels, that gets used for the local similarity computation. [Default: 5]
  • --search-radius <none> — the search radius for local image patch matching. the algorithm hunts for the best-matching patch inside this radius by exhaustive search — it's thorough fr fr. [Default: 0]
  • --no-local-outliers — detects and excludes local outliers in the Shape Based Averaging procedure. we're filtering out the local weirdos 💀
  • --no-global-outliers — detects and excludes global outliers by removing poorly correlated atlases before the local SBA procedure even starts. preemptive ghosting ✨

🎀 Output Options

  • --output <string>, -o <string> — the file system path for the output image. [Default: lsbo.nii ]

🌟 AUTHORS 🌟

Torsten Rohlfing, with contributions from Michael P. Hasak, Greg Jefferis, Calvin R. Maurer, Daniel B. Russakoff, and Yaroslav Halchenko 🫶 absolute legends, all of them

📜 LICENSE 📜

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

💀 BUGS 💀

found a bug? report it at http://nitrc.org/projects/cmtk/ — do NOT 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. 💖

okay that's the whole page, you ate that 🍓 this was CMTK 3.3.1p2, dated Jun 24 2026, and it's lsba(1) obviously. go vote locally, main character 🌈✨

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