alignment-translate(1)

✨ alignment-translate(1) ✨

Okay so bestie, this is the manual page for alignment-translate 🧬 It's the tool that takes a DNA/RNA alignment and translates it into amino acids. Literally iconic. 💅

🌸 NAME 🌸

alignment-translate — Translate a DNA/RNA alignment into amino acids. 🦋

🎀 SYNOPSIS 🎀

alignment-translate [OPTIONS] < sequence-file [OPTIONS]

💖 DESCRIPTION 💖

Ngl, the whole vibe here is translating a DNA/RNA alignment into amino acids. ✨ That's it. That's the tea. 🫶

👑 ALLOWED OPTIONS 👑

• -h, –help — Pulls up a help message for you, bestie. 🧚
• -g arg (default standard), –genetic-code arg (default standard) — Lets you pick an alternate genetic code. Main character energy. 💜
• -f arg (default 1), –frame arg (default 1) — Picks the reading frame: 1, 2, 3, -1, -2, or -3. Choose your fighter. 🍓
• -r, –reverse — Just gives you the reverse. Simple, clean, no notes. 🌈
• -c, –complement — Just gives you the complement. Also simple, also iconic. 🔥
• -t arg (default yes), –translate arg (default yes) — Decides whether the sequences get translated. 🙈

🧚 EXAMPLES 🧚

Translate DNA or RNA to amino acids in reading frame 1: 💅

% alignment-translate < dna.fasta > aa.fasta

Give the reverse complement without translation: 🦋

% alignment-translate -rc --translate=no < dna.fasta > dna2.fasta

The following commands are identical, no cap: 🫶

% alignment-translate --frame=-2 < dna.fasta > aa2.fasta
% alignment-translate -rc --frame=2 < dna.fasta > aa2.fasta

🐛 REPORTING BUGS 🐛

Okay bestie, if something's broken, the BAli-Phy online help is at http://www.bali-phy.org/docs.php 💀

Please send bug reports to bali-phy-users@googlegroups.com 💌

💜 AUTHORS 💜

Benjamin Redelings. 👑

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Feb 2018 🌸 alignment-translate(1) — bye bestie, you're literally the best 💖