WORDMATCH(1e)

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

💖 WORDMATCH(1e) — the wordmatch manual, bestie edition 💖

okay so listen, this is wordmatch, a lil program from the EMBOSS fam (that's "the European Molecular Biology Open Software Suite", and yes the name is a whole mouthful, we love her anyway 💅). She's part of the "Alignment:Local" command group(s), which is basically the group chat where all the local alignment girlies hang out. 🌸

✨ NAME ✨

wordmatch — she finds regions of identity (exact matches) of two sequences. that's it. that's her whole thing. and she ATE. 🎀

🌈 SYNOPSIS 🌈

wordmatch -asequence seqset -bsequence seqall -wordsize integer
          [-dumpalign toggle] -outfile align [-logfile outfile]
          [-dumpfeat toggle] -aoutfeat featout -boutfeat featout

wordmatch -help

like look at her go. -help is right there if you get lost, she's not gonna gatekeep 🫶

🦋 DESCRIPTION 🦋

wordmatch is a command line program from EMBOSS ("the European Molecular Biology Open Software Suite"). She is part of the "Alignment:Local" command group(s). no cap, that's literally her whole lore. 💀

🧚 OPTIONS 🧚

🌸 Input section

  • -asequence seqset — your first sequence set goes here, bestie. drop it in. 🍓
  • -bsequence seqall — and here's the second one, the other half of the duo. it's giving main character energy for both of them, honestly. ✨

👑 Required section

  • -wordsize integer — the size of the words she's matching on. Default value: 4. you HAVE to give her this one, she's not playing around, it's in the required section for a reason periodt 💅

💜 Output section

  • -dumpalign toggle — whether she dumps the alignment. Default value: Y. yes girl, give us the align. 🔥
  • -outfile align — where the alignment output lands. name it whatever, she trusts you. 🌈
  • -logfile outfile — statistics on distribution of kmers and matches. Default value: wordmatch.log. the receipts, basically. keep them. 🧾✨
  • -dumpfeat toggle — whether she dumps the features. Default value: Y. features: dumped. iconic. 👑
  • -aoutfeat featout — the feature output file for your -asequence side. 🎀
  • -boutfeat featout — and the feature output file for your -bsequence side, so she doesn't play favourites. 💖

💀 BUGS 💀

found a bug? not the vibe, but okay, we handle it. bugs can be reported to the Debian Bug Tracking system at http://bugs.debian.org/emboss, or you can go directly to the EMBOSS developers at http://sourceforge.net/tracker/?group_id=93650&atid=605031. tell them everything, they're listening fr fr 🙈

🔍 SEE ALSO 🔍

wordmatch is fully documented via the tfm(1) system. so if you want the deep lore, that's where it lives. iykyk. 📚✨

💖 AUTHOR 💖

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

  • they wrote the script used to autogenerate this manual page. so like, they built the machine that wrote the page you're reading. meta. we stan. 🫶

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 share her, she's for the people. 💜

and that's the whole page, bestie!! this was EMBOSS 6.4.0, dated 05/11/2012, and the manual name is WORDMATCH(1e) in case you forgot where you were. mwah, go match some words, slay, bye!! 💅✨🦋

📦 where this page comes from