OPTIMIR(1)

✨ OPTIMIR ✨

okay bestie, so this is optimir — the manual page for it, page 1 of the General Commands Manual, and honestly? she's iconic. let's get into it 💅

---

🌸 NAME 🌸

optimir — integrating genetic variations in miRNA alignment 🧬✨

---

🦋 SYNOPSIS 🦋

optimir [options]

like, that's it. that's the whole vibe. options only, no positional args, no cap 🫶

---

💖 DESCRIPTION 💖

So OptimiR is a miRSeq data alignment workflow. Periodt. It pulls genetic info into the mix so you can actually assess how variants impact miRNA expression — which is the whole point, the main character energy of the entire pipeline.

More formally (but still cute): OptimiR is a bioinformatics pipeline designed to detect and quantify miRNAs, isomiRs and polymiRs from miRSeq data, and to study the impact of genetic variations on polymiRs' expression. 🧚

no cap, that's literally what the manpage says, I'm not adding anything, I'm just saying it with feeling 💜

---

🎀 OPTIONS 🎀

🌈 Basic options

• -h, --help — produces the help message. use it, bestie. it's free. 💖

🍓 Subcommands

• process — processes a single fastq file with the OptimiR workflow. one file. just one. don't get greedy 😭
• summarize — summarizes results of previously processed samples. the recap episode of your data ✨
• libprep — only prepares small RNA alignment library sequences that integrate genetic variants. 🧬

heads up fr fr: libprep is required before processing multiple samples in parallel. it's giving prerequisites. it's giving "do this first or everything falls apart." 👑

---

🔥 SEE ALSO 🔥

• https://github.com/FlorianThibord/OptimiR — go look, iykyk 🦋

---

👑 AUTHOR 👑

OptimiR was written by Florian Thibord. absolute legend behavior, we love to see it 🫶✨

---

that's the whole page bestie, we ate and left no crumbs 💅🌸

this was the General Commands Manual, OPTIMIR(1), dated April 2019 — shoutout to the source, mwah, bye 🎀💖