MERGER(1e)

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

💖 MERGER(1e) — like, the merge-two-sequences girlies' manual 💖

okay so bestie, welcome to the EMBOSS corner of the terminal, this one's merger, and it lives in the EMBOSS Manual for Debian. She's a whole vibe and she has ONE job. Let's get into it. 🦋

✨ NAME ✨

merger — merge two overlapping sequences 🌸

Like, take sequence A and sequence B, they overlap, and boom — merged. That's the entire personality. 👑

✨ SYNOPSIS ✨

merger -asequence sequence -bsequence sequence [-datafile matrixf]
       [-gapopen float] [-gapextend float] -outfile align -outseq seqout

merger -help

see how the second line is just merger -help? yeah. she's lowkey helpful like that. 💅

✨ DESCRIPTION ✨

merger is a command line program straight out of EMBOSS — that's "the European Molecular Biology Open Software Suite", no cap, that's literally the full name. 🧬✨

She's part of the "Alignment:Consensus" command group(s). So like, that's her clique. That's her friend group. She belongs there. 💖

✨ OPTIONS ✨

🌸 Input section 🌸

  • -asequence sequence — your first sequence, the A-side of the situation 🎀
  • -bsequence sequence — your second sequence, the B-side, the other half of the overlap 🫶
  • -datafile matrixf — this is the scoring matrix file she uses when she's comparing sequences, okay? By default it's the file 'EBLOSUM62' (for proteins) or the file 'EDNAFULL' (for nucleic sequences). And where do these live? In the 'data' directory of your EMBOSS installation. iykyk. 📁✨

🌈 Additional section 🌈

  • -gapopen float — Default value: @($(acdprotein)? 50.0 : 50.0 ) 💅
  • -gapextend float — Default value: @($(acdprotein)? 5.0 : 5.0) 💅

yes bestie those default expressions are literally written like that, we do not touch them, we do not "clean them up", we copy them exactly. periodt.

💜 Output section 💜

  • -outfile align — where the alignment goes, main character output file energy ✨
  • -outseq seqout — and this is where the output sequence lands 🦋

😭 BUGS 😭

Found a bug? Not the vibe, but okay, it happens. You can report it 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. 🐛➡️📮

fr fr, report the bugs, they wanna know.

👀 SEE ALSO 👀

merger is fully documented via the tfm(1) system. So if you want 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. iconic 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. 📜✨

and that's the whole thing bestie, you ate 💖

this page came to you courtesy of EMBOSS 6.4.0, dated 05/11/2012, and yeah, it's the MERGER(1e) page — mwah, slay, bye 💅🌸

📦 where this page comes from