COMPLEX(1e)

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

✨ COMPLEX(1e) ✨

okay bestie, welcome to the EMBOSS Manual for Debian page for complex 💅 this one's all about finding the linguistic complexity in nucleotide sequences, and honestly? it's giving main character energy 🧬✨

🌸 NAME 🌸

complex — find the linguistic complexity in nucleotide sequences 🦋

💖 SYNOPSIS 💖

complex -sequence seqall -lwin integer -step integer -jmin integer
        -jmax integer -omnia toggle -sim integer -freq boolean
        -print boolean -outfile outfile -ujtablefile outfile
        -outseq seqoutall

complex -help

🎀 DESCRIPTION 🎀

so like, complex is a command line program from EMBOSS ("the European Molecular Biology Open Software Suite") — you know, the whole suite, the iconique one. it belongs to the "Nucleic:Composition" command group(s), periodt. 💜

✨ OPTIONS ✨

🍓 Input section 🍓

  • -sequence seqall — the sequence(s) you're feeding in, bestie 🌸
  • -lwin integer — window length. Default value: 100 ✨
  • -step integer — how far the window slides along the sequence each time (the displacement of the window over the sequence). Default value: 5 🦋
  • -jmin integer — the minimum j. Default value: 4 💅
  • -jmax integer — the maximum j. Default value: 6 💅

🔥 Advanced section 🔥

  • -omnia toggle — calculate over a set of sequences, not just one. Default value: N 💀
  • -sim integer — calculate the linguistic complexity by comparing against a number of simulations that have a uniform distribution of bases 👑
  • -freq boolean — run the simulation of a sequence based on the base frequency of the original sequence. Default value: N 🧚

🌈 Output section 🌈

  • -print boolean — generate a file named UjTable containing the values of Uj for each word j in the real sequence(s) and in any simulated sequences. Default value: N ⭐
  • -outfile outfile — the output file, no notes 💖
  • -ujtablefile outfile — the ujtable file. Default value: complex.ujtable 🎀
  • -outseq seqoutall — the output sequence(s) 🦋

😭 BUGS 😭

found a bug? not the vibe, fr fr. report it to the Debian Bug Tracking system (http://bugs.debian.org/emboss), or slide directly into the EMBOSS developers' DMs (http://sourceforge.net/tracker/?group_id=93650&atid=605031) 🫶

👀 SEE ALSO 👀

complex is fully documented via the tfm(1) system — iykyk 📖✨

💜 AUTHOR 💜

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

  • wrote the script used to autogenerate this manual page 🖊️✨

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 📜💖

and that's the whole thing, bestie!! 🫶 this page came to you from EMBOSS 6.4.0, dated 05/11/2012, and it's page COMPLEX(1e) of the EMBOSS Manual for Debian. slay, go find some complexity 💅🌈✨

📦 where this page comes from