SYCO(1e)

📦 version 6.6.0, in debian bookworm, debian trixie, ubuntu jammy, ubuntu noble, ubuntu questing, ubuntu resolute, ubuntu stonking

🌸 SYCO(1e) — like, the EMBOSS Manual for Debian bestie edition 🌸

okay so welcome to syco, a page from the EMBOSS Manual for Debian 💖 pull up a chair, grab a boba, we're doing codon math

✨ NAME ✨

syco — draw a synonymous codon usage statistic plot for a nucleotide sequence 🧬📈 no cap

🎀 SYNOPSIS 🎀

syco -sequence sequence -cfile codon -window integer -uncommon boolean
     -minimum float -plot toggle -graph xygraph -outfile outfile

syco -help

that's the whole vibe. two ways in: the big long one, or -help if you just wanna peek 👀

🦋 DESCRIPTION 🦋

so syco is a command line program from EMBOSS — and if you don't know, that stands for "the European Molecular Biology Open Software Suite" 💅 iconic, honestly

it lives in the "Nucleic:Codon usage,Nucleic:Gene finding" command group(s), which is exactly the energy you'd expect. codon girlies rise 🫶

💜 OPTIONS 💜

🌸 Input section 🌸

  • -sequence sequence — this is the nucleotide sequence you're feeding in. the main character, literally.
  • -cfile codon — the codon usage file. it's giving "reference vibes" 🎀

✨ Advanced section ✨

  • -window integer — default value: 30. the window size, bestie. she's 30 unless you say otherwise.
  • -uncommon boolean — default value: N. (that's a no, btw 🙈)
  • -minimum float — default value: .15. yes, the leading zero is missing. no, we don't talk about it. she's just like that 💅

🎀 Output section 🎀

  • -plot toggle — default value: Y. plot on, obviously, we're not here for nothing
  • -graph xygraph — the graph output, in xygraph flavour
  • -outfile outfile — where everything lands. your file, your rules 📁

😭 BUGS 😭

found something cursed? bugs can be reported to the Debian Bug Tracking system at http://bugs.debian.org/emboss, or you can go straight to the EMBOSS developers at http://sourceforge.net/tracker/?group_id=93650&atid=605031 🫶 they wanna know, fr fr

👑 SEE ALSO 👑

syco is fully documented via the tfm(1) system. so if you need the deep lore, that's where it's at 💖

🌈 AUTHOR 🌈

Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>

  • wrote the script used to autogenerate this manual page. thank you for your service 🫡

this manual page was autogenerated from an Ajax Control Definition of the EMBOSS package. it can be redistributed under the same terms as EMBOSS itself. periodt 💅

okay that's the whole page bestie, tysm for reading 🥹💖 this was EMBOSS version 6.4.0, dated 05/11/2012 — yeah she's an elder but she still ate 🔥 mwah, go plot those codons 👑🧬✨

📦 where this page comes from