TRANSEQ(1e)

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

✨ TRANSEQ(1e) ✨

okay bestie, welcome to the EMBOSS Manual for Debian page for transeq 💖 this is the translation girlie of the nucleic acid world, and she's about to eat 💅

🎀 NAME 🎀

transeq — translate nucleic acid sequences 🌸

🌈 SYNOPSIS 🌈

transeq -sequence seqall [-frame list] [-table list] [-regions range]
        [-trim boolean] [-clean boolean] -alternative boolean
        -outseq seqoutall

transeq -help

💖 DESCRIPTION 💖

transeq is a command line program from EMBOSS (aka “the European Molecular Biology Open Software Suite”) — yes, that's the full government name, no nicknames allowed 😌 It is part of the "Nucleic:Translation" command group(s), which is exactly what it sounds like: taking your nucleic acids and turning them into protein realness 🦋

✨ OPTIONS ✨

🍓 Input section

  • -sequence seqall — your input sequence(s), the main character of this whole operation 💜

🧚 Additional section

  • -frame list — which reading frame(s) to translate. Default value: 1
  • -table list — the translation table to use
  • -regions range — Regions to translate. If this is left blank, then the complete sequence is translated. A set of regions is specified by a set of pairs of positions. The positions are integers. They are separated by any non-digit, non-alpha character. Examples of region specifications are: 24-45, 56-78 1:45, 67=99;765..888 1,5,8,10,23,45,57,99
careful bestie!! Note: you should not try to use this option with any other frame than the default, -frame=1 😭 don't do it, it's giving chaos
  • -trim boolean — This removes all 'X' and '*' characters from the right end of the translation. The trimming process starts at the end and continues until the next character is not a 'X' or a '*' Default value: N
  • -clean boolean — This changes all STOP codon positions from the '*' character to 'X' (an unknown residue). This is useful because some programs will not accept protein sequences with '*' characters in them. Default value: N

👑 Advanced section

  • -alternative boolean — The default definition of frame '-1' is the reverse-complement of the set of codons used in frame 1. (Frame -2 is the set of codons used by frame 2, similarly frames -3 and 3). This is a common standard, used by the Staden package and other programs. If you prefer to define frame '-1' as using the set of codons starting with the last codon of the sequence, then set this to be true. Default value: N

🦋 Output section

  • -outseq seqoutall — where your shiny new output sequence(s) go 💫

💀 BUGS 💀

Bugs can be reported to the Debian Bug Tracking system (http://bugs.debian.org/emboss), or directly to the EMBOSS developers (http://sourceforge.net/tracker/?group_id=93650&atid=605031). fr fr, they wanna hear about it 🙈

👀 SEE ALSO 👀

transeq 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. not all heroes wear capes, some of them write autogeneration scripts ✨

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 💅

and that's the whole vibe, bestie!! this lil icon was brought to you by EMBOSS 6.4.0, dated 05/11/2012, living under the TRANSEQ(1e) name 🌸 go translate something iconic 💖

📦 where this page comes from