PEPCOIL(1e)

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

💖 PEPCOIL(1e) 💖

okay so bestie, welcome to pepcoil — she's a command line program from EMBOSS (that's the European Molecular Biology Open Software Suite, iconic name, no notes) and she lives in the Debian manual pages for EMBOSS. Her whole thing? Predicting coiled coil regions in protein sequences. Yes queen, protein structure prediction, we love a science moment 🧬✨

She hangs out in the "Protein:2D Structure,Protein:Domains" command group(s), so if you're looking for her at the function, that's the section. iykyk 🎀

🌸 SYNOPSIS 🌸

Like, the whole vibe in one block:

pepcoil -sequence seqall -window integer -coil boolean -frame boolean
        -other boolean -outfile report

pepcoil -help

That's it. That's the whole incantation. Type it, slay, move on 💅

🦋 DESCRIPTION 🦋

pepcoil is a command line program from EMBOSS (“the European Molecular Biology Open Software Suite”). She is part of the "Protein:2D Structure,Protein:Domains" command group(s).

That's literally it. She predicts coiled coil regions. She does not elaborate. Main character energy fr fr 👑

✨ OPTIONS ✨

🍓 Input section

  • -sequence seqall — your protein sequence goes here. Give her the seqall and she'll do her thing. This is the "here's my data bestie" option 💖

🎀 Required section

  • -window integer — the window size, and yeah she needs it, it's required. Default value: 28. Don't skip her, she's not optional.

🌈 Output section

  • -coil boolean — toggles the coil output. Default value: Y. So yeah, by default she IS giving you coil output. As she should 💅
  • -frame boolean — toggles the frame output. Default value: $(coil) — which is the cutest little detail ever, she literally copies whatever you set -coil to. If -coil is on, -frame is on. The way she just inherits it? obsessed 🫶
  • -other boolean — toggles the other output. Default value: N. Off by default, your call bestie.
  • -outfile report — where the report goes. Your output file. Name it whatever, she'll write there. ✨

💀 BUGS 💀

Found a bug? Not the vibe, but okay, report it. You can hit up the Debian Bug Tracking system at http://bugs.debian.org/emboss, or go straight to the EMBOSS developers at http://sourceforge.net/tracker/?group_id=93650&atid=605031. They'll handle it, no cap 🙈

🔥 SEE ALSO 🔥

pepcoil is fully documented via the tfm(1) system. So if you want the deep lore, that's where you go, bestie 📚

👑 AUTHOR 👑

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

  • Wrote the script used to autogenerate this manual page. Yeah, a script wrote this. Respect the automation honestly 🎀

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. So like, same rules as EMBOSS, periodt.

and that's the whole page, bestie!! this one's from EMBOSS 6.4.0, dated 05/11/2012 — a lil vintage, still slaying 💅✨ go predict some coiled coils, ily, bye 🦋💖

📦 where this page comes from