DOTMATCHER(1e)

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

💖 DOTMATCHER 💖 (section 1e, from the EMBOSS Manual for Debian, bestie)

okay so like. you know when you have two sequences and you wanna see where they vibe with each other?? that's this. it draws a threshold dotplot. two sequences. dots. threshold. iconic. ✨

🌸 NAME 🌸

dotmatcher — Draw a threshold dotplot of two sequences 🦋

🎀 SYNOPSIS 🎀

dotmatcher -asequence sequence -bsequence sequence [-matrixfile matrix]
           [-windowsize integer] [-threshold integer] -stretch toggle
           -graph graph -xygraph xygraph

dotmatcher -help

✨ DESCRIPTION ✨

so dotmatcher is a command line program from EMBOSS, which stands for "the European Molecular Biology Open Software Suite" 🧚. no cap, that's the whole name, it's a lot, i know.

it lives in the "Alignment:Dot plots" command group(s), so if you're browsing the fam, that's where you'll find it 💅.

👑 OPTIONS 👑

🍓 Input section

  • -asequence sequence — your first sequence goes here, bestie. this is sequence A 💖
  • -bsequence sequence — and this is sequence B, the other half of the duo 🫶
  • -matrixfile matrix — this is the scoring matrix file used when comparing sequences 🔥. by default it's the file 'EBLOSUM62' (for proteins) or the file 'EDNAFULL' (for nucleic sequences) — pick your fighter based on what you're comparing. these files are found in the 'data' directory of the EMBOSS installation, so that's where they're at, no searching required 🎀

🦋 Additional section

  • -windowsize integer — Default value: 10 ✨
  • -threshold integer — Default value: 23 ⭐

🌈 Output section

  • -stretch toggle — Display a non-proportional graph 💀. Default value: N
  • -graph graph — the graph output file goes here 📈
  • -xygraph xygraph — and the xygraph output file goes here 🌸

😭 BUGS 😭

found a bug? not the vibe, but okay, report it 🫶. 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). they wanna know, fr fr.

🔥 SEE ALSO 🔥

dotmatcher is fully documented via the tfm(1) system 👑. go read that if you want the full lore.

💜 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 💖

okay that's the whole thing, you're officially a dotplot girlie now 💅🌸

this was page DOTMATCHER(1e) from EMBOSS 6.4.0, dated 05/11/2012, and yes she's serving Debian Manual for EMBOSS energy 🧚‍♀️ bye bestie, go make some dots 💖✨🦋

📦 where this page comes from