VCFCLEANCOMPLEX(1)

VCFCLEANCOMPLEX 💅✨

okay bestie, welcome to vcfcleancomplex — it lives in the vcfcleancomplex (VCF transformation) family of tools, and it is so much less scary than it sounds, promise 🫶

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NAME 🎀

vcfcleancomplex — literally just the name, that's the whole vibe ✨

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SYNOPSIS 🌸

vcfcleancomplex

that's it. that's the whole command. no args, no flags, nothing. iconic minimalism fr fr 💅

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DESCRIPTION 🦋

So what does this lil guy do? It removes reference-matching sequence from complex alleles, and then it adjusts records to reflect positional change. 🧚

Like, the complex allele had a bunch of stuff in it that was already chillin' in the reference, right? And vcfcleancomplex is like "not today bestie" and yeets that matching sequence out, then goes back and fixes up all the positions so everything still lines up correctly. main character energy, honestly. 👑

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✨ OPTIONS ✨

• Generate a VCF stream in which 'long' non-complexalleles have their position corrected. 🌀
  • lowkey important caveat: it assumes that VCF records can't overlap 5'->3'. so like, don't come for it if your records overlap, okay? 🙈
  • Type: transformation 🔥

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EXIT VALUES 🌈

• 0 — success! you ate. 💖
• not 0 — failure. it's giving error. 😭

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SEE ALSO 👑

• vcflib(1) — the whole fam, go check it out 🫶

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OTHER 🍓

LICENSE ⭐

Copyright 2011-2024 (C) Erik Garrison and vcflib contributors. MIT licensed. Copyright 2020-2024 (C) Pjotr Prins. 📜

AUTHORS 💜

Erik Garrison and vcflib contributors. 🎀

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ngl the MIT licensed part means you can basically do whatever, but always give the credit bestie, it's the bare minimum 💅

okay bye, this has been vcfcleancomplex from the vcfcleancomplex (vcflib) manual, brought to you by the vcfcleancomplex (VCF transformation) crew — slay, stay hydrated, and may your alleles always be clean 🧚✨💖