DENSITY-SCORE-BY-RESIDUE(1)

💖 DENSITY-SCORE-BY-RESIDUE(1) 💖

okay bestie, so this is density-score-by-residue(1) — yes it's a section-1 General Commands Manual page, and yes it is literally the most lowkey mysterious little program you'll ever meet. buckle up 🎀

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✨ NAME ✨

density-score-by-residue — program to... 🦋

no fr that's it. the original page literally trails off with "program to...". the mystery is the vibe. we don't know either. iykyk 💅

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🌸 SYNOPSIS 🌸

density-score-by-residue

just like that. no args, no flags, nothing in the synopsis. iconic behaviour honestly.

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💜 DESCRIPTION 💜

density-score-by-residue is a part of the Coot suite of programs. 🧚 that's the whole description, bestie — it's giving "shows up, does its thing, doesn't explain itself."

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🔥 OPTIONS 🔥

so these programs follow the usual GNU command line syntax, with long options starting with two dashes (--). a summary of the options is included below, and i am not skipping a single one of them, periodt ✨

• --pdbin=file — Input PDB file name 🫶
• --hklin=file — MTZ file containing structure factors
• --f=label — label of MTZ file column containing structure factor amplitudes
• --phi=label — label of MTZ file column containing structure factor phases
• --weight=label — Label of weight column in MTZ file
• --score-atoms — (no description on the original page, bestie — it's a mystery option, we report the facts and only the facts 💀)
• --cut — cut out badly scoring residues ✂️
• --cut-level=level — Set (absolute) density level below which we can cut out residues
• --pdbout=file — Output PDB file name

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🌈 SEE ALSO 🌈

go read these next, they're all in the family:

• bfactan(1)
• coot(1)
• findligand(1)
• findwaters(1)
• fix-nomenclature-errors(1)
• lidia(1)

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👑 AUTHOR 👑

density-score-by-residue is written by Paul Emsley.

This manual page was written by Morten Kjeldgaard <mok@bioxray.dk>

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and that's the whole page, bestie! 💖 you now know literally everything this manual has ever said. no cap. slay. go score some residues. 🦋✨

with love from the General Commands Manual, dated January, 2011 — xoxo, DENSITY-SCORE-BY-RESIDUE(1) 💅🎀