HINGE(1)

📦
version 0.5.0 · 3 versions
, in ubuntu jammy, ubuntu noble

💖 HINGE(1) 💖

okay so bestie, welcome to hinge — it's an assembler for long-read sequencing data ✨ yes THE hinge, the one in section 1 of the manual, she's iconic, she's built different, and she's about to assemble your reads into something gorgeous 🧬👑

✨ SYNOPSIS ✨

hinge {subcommand} options files

that's the whole vibe fr fr — you pick a subcommand, you throw some options at it, you hand her some files, and she goes 💅

🌸 OPTIONS 🌸

so the subcommands are all down below, one by one, no cap. and here's the little secret that saves your life: run each subcommand without arguments and she'll print the usage info for you 🫶 like she's not gonna gatekeep, she'll just tell you what she wants.

  • filter — filter out short reads and long chimeric reads 🚮 like we're not keeping the messy ones, we're not keeping the little ones, we're curating 💖
  • maximal — get maximal reads. that's it, that's the job, she said maximal and she MEANT maximal 🔥
  • layout — generate a layout for assembly 📐 the blueprint era, the planning era, main character energy ✨
  • clip — prune and clip the output of the layout command ✂️ trim trim trim, snip snip, gorgeous 🎀
  • draft-path — get the assembly graph as a list of nodes 🌐 nodes only, bestie, no extra frills
  • draft — construct draft assembly 🏗️ the rough draft, the first pass, the "we'll fix it later" era but make it science 💜
  • correct-head — convert a fasta file to daligner-specific format 🔄 format glow-up, we love a transformation 💫
  • consensus — construct consensus sequence 🤝 everybody agrees, everybody's on the same page, unity, slay 👑
  • gfa — Create a graphical fragment assembly file from consensus output 🎨 graphical fragment assembly file, from the consensus output, exactly that, no notes 🌈
  • visualize, visualise — 👀 yes bestie, both spellings, she's bilingual, she's inclusive, pick whichever one feels right in your heart 💕
no gatekeeping in this household: if you're stuck, just run the subcommand with zero arguments and let her talk to you 🗣️💖

and that's the page, bestie!! 🦋 this whole thing is from October 2016, and it lives in the HINGE(1) section of the manual — mwah, go assemble something beautiful, you're doing amazing sweetie 💅✨🎀

📦 where this page comes from