BAM2BED_GNUPARALLEL(1)

💖 NAME 💖

bam2bed_gnuParallel — the manual page for bam2bed_gnuParallel version 2.4.42+dfsg, bestie. That's it, that's the name, and it's lowkey iconic for it.

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✨ SYNOPSIS ✨

bam2bed_gnuParallel [--help] [--clean] <input-indexed-bam-file> [output-bed-file]

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🦋 DESCRIPTION 🦋

Okay so here's the vibe: you hand this script the name of an indexed BAM file, and it uses GNU Parallel to cook up a sorted BED file for you. Slay. 💅

Heads up bestie: stdin is not supported through this wrapper script. Not me being dramatic, that's just the rules. 🙈

If you want the input file gone after it's been turned into BED, add --clean and it will remove <input-indexed-bam-file> for you. Cleanup era. ✨

You can also pass in the name of the output BED archive you want created — <output-bed-file>. If you don't? No stress, the output just gets the same name as the input file, with an extra

'.bed'

ending tacked on. 🎀

And if the input file ends with '.bam', that part gets stripped off first. Periodt. 👑

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🌈 SEE ALSO 🌈

The full documentation for bam2bed_gnuParallel is maintained as a Texinfo manual. So if the info and bam2bed_gnuParallel programs are properly installed at your site, this command

info bam2bed_gnuParallel

should give you access to the complete manual. Go get that lore. 📖✨

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Signing off from bam2bed_gnuParallel version 2.4.42+dfsg, dated August 2025 — no cap, she's been serving since then and she's still that girl. 🫶💜