FASTAQ-INTERLEAVE(1)

✨ NAME ✨

fastaq_interleave — bestie, this one interleaves two files for you, and the output just alternates between fwd/rev reads like a little choreo 💃

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💖 DESCRIPTION 💖

okay so here's the vibe. you got two files, you want them interleaved, and the output goes fwd, rev, fwd, rev — alternating, no cap. that's it, that's the whole thing 🦋

the usage looks like this:

fastaq_interleave <infile_1> <infile_2> <outfile>

literally just: two files in, one interleaved file out. alternating between fwd/rev reads the whole way through. periodt 💅

🎀 positional arguments 🎀

• infile_1 — the name of your first input file, bestie. first one goes here 🫶
• infile_2 — the name of your second input file. yep, second one, right next to the first 🍓
• outfile — the name of the output file where your interleaved reads land ✨

🧚 options 🧚

• -h, --help — shows this help message and then dips out. iconic behaviour ngl 👑
• --suffix1 SUFFIX1 — a suffix to add to all the names coming from infile_1, but only if that suffix isn't already there (it checks! it's polite!) 💜
• --suffix2 SUFFIX2 — same energy but for infile_2: a suffix to add to all the names from infile_2, only if the suffix isn't already present 🌸

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quick reminder bestie: suffix 1 is for infile_1, suffix 2 is for infile_2. don't cross them, i'm begging 🙈

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and that's the whole page, you ate it, no crumbs 🌈 this was fastaq_interleave version 3.17.0, dated January 2026, coming to you from the User Commands corner of the manual. mwah, go interleave something 💖✨💅