SEGMENTFST(1)

💖 SEGMENTFST ✨

okay bestie, so this is segmentFst, part of the vcflib crew, and it lives in the VCF statistics neighborhood. it's giving "let me find you the juicy high-Fst regions of your genome" and honestly? slay. 🧬💅

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🌸 SYNOPSIS 🌸

segmentFst -s 0.7 -f wcFst.output.txt

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🦋 DESCRIPTION 🦋

segmentFst creates genomic segments (a bed file, bestie) for regions with high wcFst. that's it, that's the job. 🎀

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✨ OPTIONS ✨

segmentFst provides a way to find continious regions with high Fst values. It takes the output of wcFst and produces a BED file. These high Fst region can be permutated with permuteGPATwindow.

no cap, that's the whole pipeline vibe. 🔥

📋 Output — 8 columns, periodt

Output : 8 columns :

1. Seqid
2. Start (zero based)
3. End (zero based)
4. Average Fst
5. Average high Fst (Fst > -s)
6. N Fst values in segment
7. N high fst values in segment
8. Segment length

heads up: columns 2 and 3 are zero based, so don't come for me when your coordinates look off by one. that's on purpose. 🙈

🫶 Flags

• required: -f — Output from wcFst
• optional: -s — High Fst cutoff [0.8]

fr fr: -f is required, no skipping it. -s is optional and defaults to 0.8.

Type: statistics 👑

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💀 EXIT VALUES 💀

• 0 — Success ✨ (we ate)
• not 0 — Failure 😭 (it's giving error)

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🌈 SEE ALSO 🌈

• vcflib(1)

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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 🎀 the footer tag on this one is segmentFst (vcflib), so like, that's the source/version vibe — go forth and segment those high-Fst regions, iykyk 💖✨🦋