FASTAQ-CAF_TO_FASTQ(1)

✨ NAME ✨

fastaq_caf_to_fastq — the little glow-up machine that turns a CAF file into FASTQ format 💖

---

🌸 DESCRIPTION 🌸

okay bestie, here's the vibe. This is fastaq_caf_to_fastq, a User Command, and it literally does one iconic thing: it converts a CAF file into FASTQ format. no cap.

Here's how you call it:

fastaq_caf_to_fastq [options] <infile> <outfile>

That's it. That's the whole main character energy. Converts CAF file to FASTQ format 🦋

🌈 positional arguments:

• infile — the name of your input CAF file. the source material, the origin story ✨
• outfile — the name of your output FASTQ file. where the glow-up lands 💅

💜 options:

• -h, --help — shows this help message and then dips out (exits). your emotional support flag 🫶
• -c, --clip — use the clipping info to clip reads, if it's present in the input CAF file (it shows up as lines of the form "Clipping QUAL start end"). default is to not clip — so if you want the clipping, you gotta ask for it, she's not gonna assume 😌
• -l, --min_length INT — minimum length of sequence to output, and the default is 1. anything shorter than your number does not make the cut, periodt ✂️

ngl, if you skip -c your reads are coming through unclipped — that's the default behaviour, so don't come for her later 💀

---

🎀 SEE YA 🎀

and that's the whole page, bestie! this was fastaq_caf_to_fastq version 3.17.0, dated January 2026 — written down in the User Commands of the manual, and now lovingly retold by me. mwah 💋 go convert something iconic. 👑🌈⭐