PLOTHAPS(1)

🎀 NAME 🎀

plotHaps — bestie, it's a VCF statistics plotter and it's literally here to serve 💅

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🦋 SYNOPSIS 🦋

okay so… there isn't one?? the synopsis section is empty, no cap. she's mysterious like that 🙈

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✨ DESCRIPTION ✨

plotHaps hands you the formatted output that you can then feed straight into bin/plotHaplotypes.R. that's the whole vibe — she preps the data, R does the glow-up 🌸

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💜 OPTIONS 💜

Output : haplotype matrix and positions — yeah that's the tea she's producing 🫶

like, for example:

plotHaps  --target 0,1,2,3,4,5,6,7  --file my.phased.vcf.gz

and now the actual flags, all of them, no skipping:

• t, target — required. argument: a zero base comma separated list of target individuals corresponding to VCF column s
• r, region — required. argument: a tabix compliant genomic range : "seqid:start-end" or "seqid"
• f, file — required. argument: proper formatted phased VCF file
• y, type — required. argument: genotype likelihood format: PL,GP,GP

Type: statistics ⭐

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🔥 EXIT VALUES 🔥

• 0 — Success 👑 she ate, no crumbs
• not 0 — Failure 😭 it's giving tragedy

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🌈 SEE ALSO 🌈

vcflib(1) — the whole fam, go say hi 🫶

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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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and that's the whole page bestie!! this one's plotHaps (vcflib) — MIT licensed, iconic, licensed to slay 💅✨