LEFSE_PLOT_RES.PY(1)

💖 LEFSE_PLOT_RES.PY 💖

okay bestie, gather round, because we're talking about lefse_plot_res.py(1) — the little script that makes your analysis look cute. no cap, this is the plotting half of the LefSe situation. let's get into it. 🎀

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✨ NAME ✨

lefse_plot_res.py — determine features of organisms, clades, taxonomic units, genes

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🌸 DESCRIPTION 🌸

so the way you call it is literally this, and yes you have to type it exactly:

usage: lefse_plot_res.py [-h] [--feature_font_size FEATURE_FONT_SIZE]

[--format {png,svg,pdf}] [--dpi DPI] [--title TITLE]
       [--title_font_size TITLE_FONT_SIZE] [--class_legend_font_size
       CLASS_LEGEND_FONT_SIZE] [--width WIDTH] [--height HEIGHT]
       [--left_space LS] [--right_space RS] [--orientation {h,v}]
       [--autoscale {0,1}] [--background_color {k,w}] [--subclades
       N_SCL] [--max_feature_len MAX_FEATURE_LEN] [--all_feats
       ALL_FEATS] [--otu_only] [--report_features] INPUT_FILE
       OUTPUT_FILE

Plot results. that's the whole vibe. it plots. 💅

📌 positional arguments

• INPUT_FILE — tab delimited input file. tabs only bb, no spaces, don't play yourself 🫶
• OUTPUT_FILE — the file for the output image

🎀 optional arguments

• -h, --help — show this help message and exit. the classic. the icon. press it when you're lost.
• --feature_font_size FEATURE_FONT_SIZE — okay so the manpage literally says "the file for the output image" for this one and i'm not gonna lie to you, bestie, that is straight up what it says. i'm just the messenger. 🙈
• --format {png,svg,pdf} — the format for the output file. pick your fighter: png, svg, or pdf ⭐
• --dpi DPI — no lil description here, she just takes a number and minds her business 💀
• --title TITLE — your title, your main character moment 👑
• --title_font_size TITLE_FONT_SIZE — how big the title is gonna be, make it iconic
• --class_legend_font_size CLASS_LEGEND_FONT_SIZE — sizing for the class legend text
• --width WIDTH — the width, she's giving dimensions
• --height HEIGHT — only for vertical histograms. vertical only, periodt. don't try it elsewhere 🌈
• --left_space LS — space on the left, let her breathe
• --right_space RS — space on the right, symmetrical queen
• --orientation {h,v} — h for horizontal, v for vertical, choose your destiny 🦋
• --autoscale {0,1} — 0 or 1, flip it and see what happens
• --background_color {k,w} — set the color of the background. k or w, that's the whole menu. 🤍🖤
• --subclades N_SCL — number of label levels to be displayed (starting from the leaves, -1 means all the levels, 1 is default ). so -1 = every single level, go wild. default is 1 in case you were wondering 🍓
• --max_feature_len MAX_FEATURE_LEN — Maximum length of feature strings (def 60). sixty is the default, don't let your feature names run off the page
• --all_feats ALL_FEATS — takes a value, she's lowkey mysterious, that's all it says in here
• --otu_only — Plot only species resolved OTUs (as opposed to all levels). if you only want the species-level ones, this is your girl 🌸
• --report_features — Report important features to STDOUT. all the important stuff goes straight to your terminal, so screenshot or redirect, bestie 😭

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💜 AUTHOR 💜

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

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and that's the whole thing, bestie 🫶 go make some gorgeous plots. this was lefse_plot_res.py version 1.1.2, dated September 2021 — love that for her. bye now, stream responsibly 💖✨