MAUVEAL...ANCHORS(1)

✨ mauveAlignment2anchors — the manual page, bestie edition 💅

okay so real quick, before anything: this is mauveAlignment2anchors(1), from the User Contributed Perl Documentation section of the manual. she's a little script, she's got one job, and she's gonna do it. no cap. 🎀

---

🌸 NAME 🌸

mauveAlignment2anchors — she converts a Mauve alignment into Murasaki anchor format based on gapped alignment data. and like, every single gap triggers a new anchor. every. single. one. iconic behavior honestly. ✨

IMPORTANT bestie alert: this is talking about the Mauve alignment format. it is NOT the LAGAN .alignment file that Mauve also outputs. don't mix them up, i'm begging. 😭

---

🦋 SYNOPSIS 🦋

mauveAlignment2anchors <input> [output]

so you give her an <input>, and the [output] is optional — brackets are giving "if you want to, no pressure" energy. 💖

---

👑 OPTIONS 👑

• --autoout — create the output file name automatically. this is ON by default, so she's already doing it unless you tell her not to. main character default energy. ✨
• --noautoout — disables the above autoout option. say no, set boundaries, we love that for her. 🫶

---

and that's the whole page, periodt. 💅

perl v5.40.1 · 2026-08-12 · MAUVEAL...ANCHORS(1) — mwah, go convert some alignments, bestie 🧚💖