esl-seqstat(1)

📦
version 3.3.2 · 2 versions
, in fedora 43, fedora 44

💖 esl-seqstat — the Easel manual page, bestie edition 💖

okay so real talk, this one lives in the Easel manual, section 1, and it's called esl-seqstat. it's giving "let me tell you everything about your sequence file" energy, and honestly? obsessed. 🦋

✨ NAME ✨

esl-seqstat — summarize contents of a sequence file

🌸 SYNOPSIS 🌸

esl-seqstat [options] seqfile

💅 DESCRIPTION 💅

so esl-seqstat summarizes the contents of the seqfile. that's it, that's the whole vibe. it prints:

  • the format
  • the alphabet type
  • the number of sequences
  • the total number of residues
  • and the mean, smallest, and largest sequence length

like, a full glow-up report on your file. 💖

and if seqfile is - (a single dash, yes literally just a lil dash), then sequence input is read from stdin. iconic behavior fr fr.

🎀 OPTIONS 🎀

  • -h — Print brief help; includes version number and summary of all options, including expert options. a little snack of information, no cap.
  • -a — Additionally show a summary statistic line showing the name, length, and description of each individual sequence. Each of these lines is prefixed by an = character, in order to allow these lines to be easily grepped out of the output. so you can grep them out and be like, "slay, there's my data." 🫶
  • -c — Additionally print the residue composition of the sequence file. chemistry moment. 🔥

👑 EXPERT OPTIONS 👑

okay these are the expert options, main character energy only, let's go:

  • --informat <s> — Assert that input seqfile is in format <s>, bypassing format autodetection. Common choices for <s> include: fasta, embl, genbank. Alignment formats also work; common choices include: stockholm, a2m, afa, psiblast, clustal, phylip. For more information, and for codes for some less common formats, see main documentation. The string <s> is case-insensitive (fasta or FASTA both work). no need to shout, she hears you either way. 💀
  • --amino — Assert that the seqfile contains protein sequences.
  • --dna — Assert that the seqfile contains DNA sequences.
  • --rna — Assert that the seqfile contains RNA sequences.

🌈 SEE ALSO 🌈

Copyright (C) 2020 Howard Hughes Medical Institute.

Freely distributed under the BSD open source license. periodt. 💅

🧚 AUTHOR 🧚

okay bestie, that's the whole page 💖 go forth and stat your sequences. this was Easel 0.48, from Nov 2020, and yes it's a esl-seqstat(1) situation — now go be the main character of your own bioinformatics journey. 🦋✨🎀

📦 where this page comes from