CNVKIT_IMPORT-THETA(1)

✨ NAME ✨

cnvkit_import-theta — the little glow-up that turns THetA output into a BED-like, CNVkit-like tabular format. 💅

And like, equivalently? Bestie, you can also use the THetA results file to convert CNVkit .cns segments into integer copy number calls. Two vibes, one command. 🦋

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🌸 DESCRIPTION 🌸

okay so here's the whole situation, the usage is giving very much:

usage: cnvkit.py import-theta [-h] [--ploidy PLOIDY] [-d DIRECTORY]
       tumor_cns theta_results

🎀 positional arguments 🎀

• tumor_cns theta_results — yes queen, both of them, right there, positional, no dashes, no nothing. just hand them over. 🫶

💖 options 💖

• -h, --help — show this help message and exit. the classic. the icon. when in doubt, -h it out. ✨
• --ploidy PLOIDY — Ploidy of normal cells. [Default: 2] — like, the baseline chromosome count of your normal cells, and yeah it defaults to 2 because we're all just diploid girlies at heart. 🧚
• -d DIRECTORY, --output-dir DIRECTORY — Output directory name. tell it where to drop the goods. 📁

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ngl, no cap, every single flag and value up there is doing its job — don't skip a single one, they're all main character energy. 👑

and that's literally the entire page, bestie. you read it, you understood it, you ate. no crumbs. periodt. 💜

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this has been cnvkit.py import-theta 0.9.10 from July 2023 — mwah, go call some copy numbers, you've got this 💖✨🎀🦋🌸