PSEQUIN(1)

💖 PSEQUIN(1) · NCBI Tools User's Manual 💖

Okay so bestie, this is the manual for Psequin, the submission queen for getting sequences into the big databases. 🧚

✨ NAME ✨

Psequin — submit sequences to Genbank, EMBL, and DDBJ 🦋

✨ SYNOPSIS ✨

Psequin [-b] [-bse] [-e] [-f filename] [-gc] [-h] [-oldaln] [-oldasn]
[-oldgph] [-oldseq] [-oldsource] [-s] [-w] [-x]

✨ DESCRIPTION ✨

Psequin is giving submission energy 💅 It's built for sending sequences off to the GenBank, EMBL, and DDBJ sequence databases. It was written at the National Center for Biotechnology Information, which is part of the National Library of Medicine at the National Institutes of Health 🏥

Psequin can build the essential bits of a GenBank record from simple FASTA-format text files 🧬 It's so smart: it grabs the proper genetic code from an organism name, and it works out coding region intervals on its own by back-translating from the protein sequence 🤯 There's also an on-line help window that scrolls to the right spot as you move between and within data entry forms, giving you the deets on what info is expected 📖

Psequin also has a bunch of built-in validation functions for quality assurance ✅ It checks things like splice sites and coding region translations for accuracy or internal consistency. If you double-click an error message, it launches an appropriate editor so you can fix the problem 🔧

Psequin gives you live, clickable views of your data in a few formats: a report form, GenBank flatfile, EMBL flatfile, and a graphical view 🌈 Double-clicking an item in any of these launches an editor for that item. The editor keeps feature table positions correct while the underlying sequence gets edited, can show features on the sequence as you work, and lets you adjust feature intervals by direct manipulation 💜

✨ OPTIONS ✨

• -b — switch into Bioseq-set mode 🌸
• -bse — binseqentry mode 🎀
• -e — Entrez mode 🔍
• -f filename — read from filename 📂
• -gc — genome center mode 🏛️
• -h — turn off automatic help 🙈
• -oldaln — use the old alignment reader 📜
• -oldasn — leave things as old ASN.1 📜
• -oldgph — use the old graphic view 🖼️
• -oldseq — use the old sequence view 🧬
• -oldsource — use the old flat-file source format 📄
• -s — subtool mode 🛠️
• -w — workbench mode 💼
• -x — read from standard input ⌨️

✨ AUTHOR ✨

The National Center for Biotechnology Information 👑 They built it, so they get the credit.

✨ SEE ALSO ✨

Bestie, you should check these out too 👀

• asnmacro(1)
• sbtedit(1)
• tbl2asn(1)
• /usr/share/doc/ncbi-tools-x11/sequin.htm
• <http://www.ncbi.nlm.nih.gov/Sequin/>

That's the NCBI Tools manual for PSEQUIN(1), dated 2016-09-01 🌸 Stay iconic, bestie 🫶✨