seqstat(1)

💅 seqstat(1) — the Biosquid Manual, but make it cute ✨

okay bestie, buckle up, because this is the little tool that looks at your sequence file and just tells you things. it's from the Biosquid Manual and it's lowkey iconic. 🦋

🌸 NAME 🌸

seqstat — show statistics and format for a sequence file 👑

✨ SYNOPSIS ✨

seqstat [options] seqfile

💖 DESCRIPTION 💖

so basically, seqstat reads a sequence file, seqfile, and shows you a bunch of simple stats about it. no cap, that's the whole job. 🎀

the stats it prints out are:

• the name of the format 📁
• the residue type of the first sequence — so like, protein, RNA, or DNA 🧬
• the number of sequences 🔢
• the total number of residues 🌈
• and the average and range of the sequence lengths 📏

it's giving "vibe check but for your FASTA file," fr fr.

🎀 OPTIONS 🎀

• -a — show additional verbose info: a table with one line per sequence showing name, length, and description line. these lines are prefixed with a * character so you can easily grep them out and sort them. it's literally built for piping, she understood the assignment. 💅
• -h — print brief help; includes the version number and a summary of all options, including expert options. bestie behaviour honestly 🫶
• -B — (Babelfish 🐠). autodetect and read a sequence file format other than the default (FASTA). almost any common sequence file format is recognized (including Genbank, EMBL, SWISS-PROT, PIR, and GCG unaligned sequence formats, and Stockholm, GCG MSF, and Clustal alignment formats). see the printed documentation for a complete list of supported formats. she speaks so many languages, multilingual queen ✨

👑 EXPERT OPTIONS 👑

• --informat <s> — specify that the sequence file is in format <s>, rather than the default FASTA format. common examples include Genbank, EMBL, GCG, PIR, Stockholm, Clustal, MSF, or PHYLIP; see the printed documentation for a complete list of accepted format names. this option overrides the default expected format (FASTA) and the -B Babelfish autodetection option. so like, it's the final boss of format flags, it said "i'll handle this" 💀
• --quiet — suppress the verbose header (program name, release number and date, the parameters and options in effect). for when you want the tea but not the small talk 🤫

🌈 SEE ALSO 🌈

afetch(1), alistat(1), compalign(1), compstruct(1), revcomp(1), seqsplit(1), sfetch(1), shuffle(1), sindex(1), sreformat(1), stranslate(1), weight(1).

the whole friend group!! go say hi to all of them 🫶💜

🦋 AUTHOR 🦋

Biosquid and its documentation are Copyright (C) 1992-2003 HHMI/Washington University School of Medicine. Freely distributed under the GNU General Public License (GPL). See COPYING in the source code distribution for more details, or contact me.

Sean Eddy HHMI/Department of Genetics Washington University School of Medicine 4444 Forest Park Blvd., Box 8510 St Louis, MO 63108 USA Phone: 1-314-362-7666 FAX : 1-314-362-2157 Email: eddy@genetics.wustl.edu

and that's the whole page, bestie!! 💖 this one shipped as Biosquid 1.9g, dated January 2003 — vintage but still eating, no crumbs left. now go run seqstat on something and feel powerful. periodt. ✨🎀🦋