PICOPORE(1)

💖 PICOPORE(1) 💖

okay bestie, sit down, hydrate, and let me tell you about picopore — a User Commands icon, June 2020 edition, and literally the moment your Oxford Nanopore Technologies dataset stops being a chonky mess. no cap. ✨

🌸 NAME 🌸

picopore — reducing the size of an Oxford Nanopore Technologies dataset without losing any data

like, the whole point. shrink it, don't lose it. 🫶

✨ SYNOPSIS ✨

picopore [-h] --mode {lossless,deep-lossless,raw} [--revert] [--fastq]
[--summary] [--manual STR] [-v] [-y] [-t INT] [--prefix STR]
[--skip-root] [--print-every INT] [input [input ...]]

🦋 DESCRIPTION 🦋

A tool for reducing the size of an Oxford Nanopore Technologies dataset without losing any data

that's it. that's the vibe. it's giving "make it small, keep it perfect." 💅

👑 OPTIONS 👑

💜 See also:

• picopore-realtime — monitors a directory for new reads and compresses them in real time. literally watching the door for new files and snatching them up the second they show up. main character behavior.
• picopore-test — compresses to temporary files and checks that all datasets and attributes are equal (lossless modes only). your lil quality-control bestie. it verifies before it commits. 🔥
• picopore-rename — renames groups and datasets within FAST5 files. glow-up for your group names.

🎀 positional arguments:

• input — list of directories or fast5 files to shrink. yes, list. plural. bring all your friends.

⭐ optional arguments:

• -h, --help — show this help message and exit. the "hey what does this do" button. iconic.
• --mode {lossless,deep-lossless,raw} — choose compression mode. this is the one that matters, bestie. pick your fighter.
• --revert — reverts files to original size (lossless modes only). undo button, but only for the lossless girlies.
• --fastq, --no-fastq — retain FASTQ data (raw mode only) (Default: --fastq). so the default here is that it DOES keep FASTQ.
• --summary, --no-summary — retain summary data (raw mode only) (Default: --nosummary). and here the default is that it does NOT keep summary. note the asymmetry, it's lowkey sneaky.
• --manual STR — manually remove only groups whose paths contain STR (raw mode only, regular expressions permitted, overrides defaults). yes regex. yes power. use it responsibly. 😭
• -v, --version — show version number and exit.
• -y — skip confirm step. living dangerously, no questions asked. 🙈
• -t INT, --threads INT — number of threads (Default: 1). one thread by default, so crank it if your machine can handle the energy.
• --prefix STR — add prefix to output files to prevent overwrite. protective. we love that for you. 🍓
• --skip-root, --no-skip-root — ignore files in root input directories for albacore realtime compression (Default: --no-skip-root).
• --print-every INT — print a dot every approximately INT files, or -1 to silence (Default: 100). dots = dopamine. -1 = peace and quiet. 🧚

🌈 AUTHOR 🌈

This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.

no thoughts, just picopore doing the absolute most so your data stays flawless. periodt. 💖

that's a wrap, bestie — picopore version 1.2.0, dated June 2020, and this page is officially a PICOPORE(1) certified banger. go compress something. 💅✨