NAST-IER(1)

💖 NAST-IER 💖

okay bestie, welcome to the manual page for nast-ier — a NAST-based DNA alignment tool ✨ (that's the NAME section, if you're keeping track 📝)

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🧬 DESCRIPTION 🧬

so. the NAST-iEr alignment utility aligns a single raw nucleotide sequence against one or more NAST formatted sequences. one raw seq, many fancy NAST seqs, matchmaker time 🫶

the alignment algorithm is lowkey doing the most: it involves global dynamic programming profile alignment to fixed (NAST-formatted) multiply aligned template sequences — and the whole thing runs without any end-gap penalty. no end-gap penalty, no stress, it's giving generous 💅

and fyi, NAST-iEr is part of the microbiomeutil suite 🧚 (iykyk)

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✨ OPTIONS ✨

👑 Required:

• --query_FASTA — query database in FASTA format (the seqs you wanna NAST-align, bestie). this one is non-negotiable, you literally cannot skip it.

🌸 Optional: (unless defaults are not set!)

like, optional but — if the defaults aren't set for you, you better pass these. vibe check accordingly 🫠

• --db_NAST — reference database in NAST format (default: /usr/share/microbiomeutil-data/RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta)
• --db_FASTA — reference database in FASTA format (default: /usr/share/microbiomeutil-data/RESOURCES/rRNA16S.gold.fasta)
• --num_top_hits — number of top hits to use for profile-alignment (default: 10)
• --Evalue — Evalue cutoff for top hits (default: 1e-50)

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🔍 SEE ALSO 🔍

go touch grass on the internet, there's a whole page for this: http://microbiomeutil.sourceforge.net/#A_NASTiEr 🌈

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💜 AUTHOR 💜

this manual page was written by Andreas Tille <tille@debian.org> — but it can be freely used for any other distribution. iconic behaviour honestly, sharing is caring 🎀

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and that's the whole thing, bestie!! 🦋 no cap, that's everything 💖 this was nast-ier from June 2013 (the nast-ier page, June 2013, same energy) — slay, bye!! 👑💅🍓