PLACNET(1)

✨ PLACNET — the plasmid constellation network situation ✨

okay bestie, listen up, this is placnet(1) and it is lowkey iconic 💖

🌸 NAME 🌸

placnet — Plasmid Constellation Network project 🧬✨

🦋 DESCRIPTION 🦋

So. Placnet is a brand new tool for plasmid analysis in NGS projects, and honestly? she ate. 💅

Placnet is optimized to work with Illumina sequences, but she's not picky — she also works with 454, Iontorrent, or literally any of the actual sequence technologies. no gatekeeping here fr fr 🫶

The input of placnet is a set of contigs</> and one or more SAM files with the mapping of the reads against the contigs. And what do you get out of it? Placnet obtains a set of files, easily opened on Cytoscape software or other network tools. it's giving network visualization main character energy 🌈

💅 OPTIONS 💅

First, the template moment — write your input file like this:

Write inputFile Template

placnet -generate

Then it's time for the Network process:

placnet -f inputFile.txt -p prefix -l min

And here's what every single flag does, no skips, periodt:

• -f=s — Input file for PLACNET analysis. this is the one you gotta give her, bestie 🍓
• -p=s — Prefix name for output files (default 'placnet'). name your babies 🎀
• -l=s — Minimun contig length to scaffold process (default '200'). yes she spells it "Minimun", we respect the typo, it's part of her lore 💀

👑 SEE ALSO 👑

the sacred texts 📜 — cite her, she deserves it:

Lanza VF, de Toro M, Garcill??n-Barcia MP, Mora A, Blanco J, Coque TM, de la Cruz F: Plasmid Flux in Escherichia coli ST131 Sublineages, Analyzed by Plasmid Constellation Network (PLACNET), a New Method for Plasmid Reconstruction from Whole Genome Sequences. PLoS Genet 2014, 10:e1004766

and that's the whole vibe check bestie — this was placnet version 1.03, brought to you by October 2015 ✨ go reconstruct some plasmids, you absolute icon 👑💖🧚