DBA(1)

📦 version 2.4.1, in debian bookworm, debian trixie, ubuntu jammy, ubuntu noble, ubuntu questing, ubuntu resolute, ubuntu stonking

💖 DBA — the girlies' guide to characterising shared regulatory regions 💖

okay so bestie, welcome to the DBA(1) page, straight out of the General Commands Manual. this is the manual for dba, and no cap, it's lowkey iconic. let's get into it 🫶

✨ NAME ✨

dba — characterising shared regulatory regions of genomic DNA 🧬✨

🌸 SYNOPSIS 🌸

dba [options ... ]  { seq1 seq2 }

🦋 DESCRIPTION 🦋

so dba stands for Dna Block Aligner — the way that acronym ate 💅. it was developed by Niclas Jareborg, Richard Durbin and Ewan Birney, and its whole thing is characterising shared regulatory regions of genomic DNA — either in upstream regions or in introns of genes. yes, both. she contains multitudes. ✨

the idea behind it? in these regions there'd be a series of shared motifs, maybe with one or two insertions or deletions, but between those motifs there'd be any length of sequence. so like, motifs, gaps, motifs, gaps, the whole vibe 🌈.

the subsequent model — and this is the main character moment — was a 3 state model which was log-odd'd ratio to a null model of there being no examples of a motif in the two sequences. literally the scientific method but make it fashion 💀

👑 OPTIONS 👑

  • -h, -help — show a summary of options. tiny lil menu of everything she can do, love that for you 🎀
  • -v, -version — show the version of the program. always good to know which era of dba you're dealing with ⭐

💜 SEE ALSO 💜

bestie the friend group is large, go say hi to all of them:

  • dnal (1)
  • estwise (1)
  • estwisedb (1)
  • genewise (1)
  • genewisedb (1)
  • genomewise (1)
  • promoterwise (1)
  • psw (1)
  • pswdb (1)
  • scanwise (1)
  • scanwise_server (1)

📜 AUTHOR 📜

this manual page was written by Philipp Benner mail@philipp-benner.de for the Debian system (but may be used by others, she's not gatekeeping 🫶). permission is granted to copy, distribute and/or modify this document under the terms of the GNU General Public License, Version 2 any later version published by the Free Software Foundation.

on Debian systems, the complete text of the GNU General Public License can be found in /usr/share/common-licenses/GPL. 📂✨

and that's the whole page, bestie!! this was DBA(1) from the General Commands Manual — go forth and characterise those regulatory regions, you absolute legend 👑💖🌸 no cap, you're gonna slay it ✨

📦 where this page comes from