mia-2dsegseriesstats(1)

💖 mia-2dsegseriesstats 💖

okay bestie, welcome to the General Commands Manual page for mia-2dsegseriesstats(1) — yes she's a whole command, yes she's iconic, let's get into it 🎀

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✨ NAME ✨

mia-2dsegseriesstats — Evaluate time-intensity curves in masked regions of image series. periodt. 💅

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🦋 SYNOPSIS 🦋

mia-2dsegseriesstats -o <original> -g <registered> [options]

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🌸 DESCRIPTION 🌸

so mia-2dsegseriesstats is the girl that goes and evaluates all the various time-intensity curves over a whole series of images that you hand her in a segmentation set. lowkey she was built specifically for this: evaluating average intensities AND variations of sections of the left ventricle myocardium. 🫀✨

heads up: the segmentation set has to contain the segmentations for all the slices that are gonna get accessed during evaluation. no slices, no vibes. that's the rule.

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💜 OPTIONS 💜

• -o, --original=(input, required); string — the original segmentation set. required, so don't ghost her on this one 🙈
• -g, --registered=(input, required); string — the registered segmentation set. also required, also not optional, okay bestie?
• -k, --skip=2 — images to skip at the begin of the series. and if (k < 0) then it uses the RV peak of the registered set — but only if it's set. 🎀
• -r, --reference=-1 — the reference frame for automatic curve extraction. negative values are how you point at specific things (if they're given in the segmentation set, that is):
  • -3: Middle of the series
  • -2: prefererred reference
  • -1: LV peak

and if any of the above is not available, or the value is < -3, then it just uses the last frame of the series. slay, fallback behaviour. 💅

• -c, --curves=(output); string — region average value curves. the output files each comprise a table in plain-text format, and that table has three columns for each section of the LV myocardium:
  1. the first column = the values you get by using the original segmentation of the reference on all images of the original series
  2. the second column = the values you get by using the registered segmentation of the reference on all images of the registered series
  3. the third column = the values you get by using the segmentations of each slice on the original images

three columns, three whole moods, one table. 🌈

• -v, --varcurves=(output); string — region variation values, same formt as described above. fr fr, same format. ✨
• -n, --nsections=0 — number of sections to use. 0 = use as segmented. otherwise, the LV myocardium is divided into n sections that enclose equal angles, starting at the right ventricle insertion point and moving clock-wise, using the LV center as the angular point. 🔥

🧚 Help & Info 🧚

• -V, --verbose=warning — verbosity of output; prints messages of the given level and higher priorities. the supported priorities, starting at the lowest level, are:
  • trace — Function call trace
  • debug — Debug output
  • info — Low level messages
  • message — Normal messages
  • warning — Warnings
  • fail — Report test failures
  • error — Report errors
  • fatal — Report only fatal errors
• --copyright — print copyright information 📜
• -h, --help — print this help
• -?, --usage — print a short help
• --version — print the version number and exit

👑 Processing 👑

• --threads=-1 — Maxiumum number of threads to use for processing. this number should be lower or equal to the number of logical processor cores in the machine. (-1: automatic estimation). let her cook on all the cores, bestie. 🔥

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🌟 EXAMPLE 🌟

Evaluate the two curve typed for 12 sections from segemntation sets orig.set and reg.set, skipping the first 2 frames. the output will be written to curves.txt and varcurves.txt respectively. 💖

mia-2dsegseriesstats -i org.set -g reg.set -c curves.txt -v varcurves.txt -n 12 -k 2

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🎀 AUTHOR(s) 🎀

Gert Wollny — the icon, the moment, the legend. 👑

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📜 COPYRIGHT 📜

This software is Copyright (c) 1999‐2015 Leipzig, Germany and Madrid, Spain. It comes with ABSOLUTELY NO WARRANTY and you may redistribute it under the terms of the GNU GENERAL PUBLIC LICENSE Version 3 (or later). For more information run the program with the option --copyright.

no warranty at all, babe. literally none. read the license before you do anything wild. 💀

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and that's the whole page!! 💅 this was written for USER COMMANDS, v2.4.7, dated mia-2dsegseriesstats(1) — mwah, go evaluate those curves, bestie 🦋💖✨