CSB-EMBD(1)

📦 version 1.2.5, in debian bookworm, debian trixie, ubuntu jammy, ubuntu noble, ubuntu resolute, ubuntu stonking

💖 CSB-EMBD 💖

okay bestie, gather round, because we're talking about csb-embd — a User Command, no big deal, just sitting here sharpening your EM maps like it owns the place 💅

✨ NAME ✨

csb-embd — sharpening of EM maps by non-negative blind deconvolution 🦋

🌸 DESCRIPTION 🌸

okay so the whole vibe of this one is literally in the name, no cap: it takes EM maps and it sharpens them via non-negative blind deconvolution. that's it, that's the girlboss move 👑

usage goes a little something like this:

csb-embd [-h] [-s PSF_SIZE] [-o OUTPUT] [-i ITERATIONS]
         [-f OUTPUT_FREQUENCY] [-v] mapfile

and if you want the actual science tea (iykyk), it's all in: Hirsch M, Schoelkopf B and Habeck M (2010) A New Algorithm for Improving the Resolution of Cryo-EM Density Maps. ✨

🎀 positional arguments 🎀

  • mapfile — the input Cryo EM file, and it has to be in CCP4 MRC format fr fr. that's your main character, she's required 🌟

💅 optional arguments 💅

  • -h, --help — shows this help message and dips. iconic behaviour honestly 🙈
  • -s PSF_SIZE, --psf-size PSF_SIZE — sets the size of the point spread function. default is 15 ✨
  • -o OUTPUT, --output OUTPUT — the output directory where your freshly sharpened maps get to live. default is . (yes, the current dir, she's low maintenance) 🏠
  • -i ITERATIONS, --iterations ITERATIONS — how many iterations you want. default is 1000 🔥 like, commit to the bit
  • -f OUTPUT_FREQUENCY, --output-frequency OUTPUT_FREQUENCY — creates a map file every f iterations. default is 50 🎀 so you get lil progress pics along the way
  • -v, --verbose — verbose mode. default is False, so if you want the commentary you have to ask for it 🗣️
ngl, if you're just running this with zero flags, she'll do her thing with 15, ., 1000, 50 and no verbosity. the defaults ate, periodt 💖

👑 AUTHOR 👑

this manpage was written by Andreas Tille for the Debian distribution, and can be used for any other usage of the program. shoutout to him, he understood the assignment 🫶

and that's the whole page babes 💜 this was csb-embd 1.2.5, dated November 2017 — go sharpen something gorgeous, you got this 🌈⭐💖

📦 where this page comes from