BP_OLIGO_COUNT(1)

📦 version 1.7.8, in nixos 26.05, nixpkgs unstable

🌸 NAME 🌸

bp_oligo_count — oligo count and frequency.

okay bestie, this is the BP_OLIGO_COUNT(1) page from User Contributed Perl Documentation, and we’re making oligo counting cute and clear. 💖

✨ SYNOPSIS ✨

Usage:  bp_oligo_count [-h/--help] [-l/--length OLIGOLENGTH]
        [-f/--format SEQFORMAT] [-i/--in/-s/--sequence SEQFILE]
        [-o/--out OUTFILE]

💖 DESCRIPTION 💖

This script counts occurrence and frequency for all oligonucleotides of a given length. Slay. 🔥

You can use it to figure out what primers are useful for frequent priming of nucleic acid for random labeling. Very main character energy for your lab era. 🧪✨

Also, note that this script could be run by utilizing the compseq program, which is part of EMBOSS. iykyk. 💅

🎀 OPTIONS 🎀

The default sequence format is fasta. If no outfile is given, the results will be printed to standard out. All other options can be entered interactively. 🫶

Here are the flags from the synopsis, bestie — no extra lore, just the exact menu names and placeholders:

  • -h, --help — the help flag from the synopsis.
  • -l, --length OLIGOLENGTH — the length flag from the synopsis; it takes OLIGOLENGTH.
  • -f, --format SEQFORMAT — the format flag from the synopsis; it takes SEQFORMAT.
  • -i, --in, -s, --sequence SEQFILE — the in/sequence flag group from the synopsis; it takes SEQFILE.
  • -o, --out OUTFILE — the out flag from the synopsis; it takes OUTFILE.

🦋 FEEDBACK 🦋

💌 Mailing Lists 💌

User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to the Bioperl mailing list. Your participation is much appreciated. 🥹💖

bioperl-l@bioperl.org                  - General discussion
http://bioperl.org/wiki/Mailing_lists  - About the mailing lists

🐛 Reporting Bugs 🐛

Report bugs to the Bioperl bug tracking system to help us keep track of the bugs and their resolution. Bug reports can be submitted via the web:

https://github.com/bioperl/bioperl-live/issues

👑 AUTHOR - Charles C. Kim 👑

Email cckim@stanford.edu 👑✨

🌈 HISTORY 🌈

  • Written July 2, 2001
  • Submitted to bioperl scripts project 2001/08/06
  • >> 100 x speed optimization by Heikki Lehvaslaiho

xoxo, your Unix bestie 💋 — this page came from perl v5.42.3, dated 2021-02-03. 🎀

📦 where this page comes from