GBSEQGET(1)

💖 GBSEQGET(1) 💖

NCBI Tools User's Manual — like, the whole manual manual, bestie, and this page lives in it 🎀

✨ NAME ✨

gbseqget — it formats sequences from GenBank as an XML GBSet 🦋

🌸 SYNOPSIS 🌸

gbseqget [-] [-d filename] [-i filename] [-m n/p/b] [-n] [-o filename]
[-v]

💅 DESCRIPTION 💅

okay so real talk: gbseqget goes and retrieves biological sequence data from GenBank (based on an input list of GI accession numbers, slay) and then prints it all out as an XML GBSet document. that's it. that's the whole vibe. 👑

🎀 OPTIONS 🎀

here's the rundown, no cap:

• - — prints the usage message. just the lil "hey here's how you use me" moment 🙈
• -d filename — input file name for the date list. and what's a date list, you ask? it's the desired accessions, one per line, followed by a blank line, and then a list of allowed dates — also one per line. yes bestie, blank line included, don't skip it 😭
• -i filename — input file name for the GI list. (default = stdin, so if you say nothing it's just listening to you directly 🫶)
• -m n/p/b — molecule type, pick your fighter:
  • n — Nucleotide (this is the default, the main character ⭐)
  • p — Protein
  • b — Both
• -n — return only new records (the ones where the given GI refers to an old version). it's giving "i only want the fresh ones" ✨
• -o filename — output file name for the XML GBSet. (default = stdout, so it just yells it into your terminal if you don't redirect 💀)
• -v — fetch SNP Variations 🔥

🧚 NOTES 🧚

okay important vibe check: the GBSet format is deprecated in favor of INSDSet. like, it still works but it's lowkey on its way out 👵

and the way to get INSDSet? just run insdseqget in place of gbseqget. swap one word, iconic behavior, periodt 💅

👑 AUTHOR 👑

The National Center for Biotechnology Information. (they ate, fr fr 🌈)

🌟 SEE ALSO 🌟

asn2gb(1), insdseqget(1).

and that's the whole page bestie!! this one came from the NCBI, dated 2006-04-14, and yes it's the NCBI Tools User's Manual energy all the way through. mwah 💜✨