FASTAQ-TRIM_CONTIGS(1)

✨ NAME ✨

fastaq_trim_contigs — bestie, this one Trims a set number of bases off the end of every contig 💅

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🌸 DESCRIPTION 🌸

okay so the vibe here is:

usage: fastaq_trim_contigs [options] <infile> <outfile>

What it does: it Trims a set number of bases off the end of every contig, so gaps get bigger and contig ends are removed. Bases are replaced with Ns. Any sequence that ends up as all Ns is lost 💀

no cap, "any sequence that ends up as all Ns is lost" means exactly that — if you trim too hard and a whole thing turns into Ns, it's gone. she does not come back. gone gone.

🎀 positional arguments 🎀

• infile — Name of input file 📥
• outfile — Name of output file 📤

🦋 options 🦋

• -h, --help — show this help message and exit ✨ (the classic)
• --trim_number TRIM_NUMBER — Number of bases to trim around each gap, and off ends of each sequence. default is [100] 👑

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that's literally it, she's a short one and she ate 🌈

fastaq_trim_contigs 3.17.0 🌸 January 2026 🦋 part of User Commands, mwah 💖 periodt.