# biology/bedtools - The NetBSD Packages Collection

Swiss army knife for genome arithmetic

    The bedtools utilities are a suite of tools for performing a wide
    range of genomics analysis tasks.  The most widely-used of these
    tools enable genome arithmetic, i.e., set theory on the genome.
    For example, with bedtools one can intersect, merge, count,
    complement, and shuffle genomic intervals from multiple files in
    common genomic formats such as BAM, BED, GFF/GTF, and VCF.

    Although each individual utility is designed to do a relatively
    simple task, e.g., intersect two interval files, more sophisticated
    analyses can be conducted by stringing together multiple bedtools
    operations on the command line or in shell scripts.

- Source version: `bedtools-2.31.1`
- Maintainer: bacon AT NetBSD.org
- Website: https://bedtools.readthedocs.io/en/latest/
- License: mit
- Package history: cvs, hg, git

## Build dependencies

pkgtools/mktools devel/gmake pkgtools/cwrappers

## Runtime dependencies

lang/python313 lang/python313

## Binary packages

OS | Architecture | Version
--- | --- | ---
NetBSD 10.0 | aarch64 | bedtools-2.31.1.tgz
NetBSD 10.0 | aarch64 | bedtools-2.31.1.tgz
NetBSD 10.0 | aarch64eb | bedtools-2.31.1.tgz
NetBSD 10.0 | alpha | bedtools-2.31.1.tgz
NetBSD 10.0 | earmv4 | bedtools-2.31.1.tgz
NetBSD 10.0 | earmv4 | bedtools-2.31.1.tgz
NetBSD 10.0 | earmv6hf | bedtools-2.31.1.tgz
NetBSD 10.0 | earmv6hf | bedtools-2.31.1.tgz
NetBSD 10.0 | earmv7hf | bedtools-2.31.1.tgz
NetBSD 10.0 | earmv7hf | bedtools-2.31.1.tgz
NetBSD 10.0 | i386 | bedtools-2.31.1.tgz
NetBSD 10.0 | i386 | bedtools-2.31.1.tgz
NetBSD 10.0 | m68k | bedtools-2.31.1.tgz
NetBSD 10.0 | m68k | bedtools-2.31.1.tgz
NetBSD 10.0 | powerpc | bedtools-2.31.1.tgz
NetBSD 10.0 | powerpc | bedtools-2.31.1.tgz
NetBSD 10.0 | powerpc | bedtools-2.31.1.tgz
NetBSD 10.0 | sh3el | bedtools-2.31.1.tgz
NetBSD 10.0 | sparc64 | bedtools-2.31.1.tgz
NetBSD 10.0 | sparc64 | bedtools-2.31.1.tgz
NetBSD 10.0 | sparc64 | bedtools-2.31.1.tgz
NetBSD 10.0 | x86_64 | bedtools-2.31.1.tgz
NetBSD 10.0 | x86_64 | bedtools-2.31.1.tgz
NetBSD 11.0 | aarch64 | bedtools-2.31.1.tgz
NetBSD 11.0 | aarch64 | bedtools-2.31.1.tgz
NetBSD 11.0 | aarch64eb | bedtools-2.31.1.tgz
NetBSD 11.0 | aarch64eb | bedtools-2.31.1.tgz
NetBSD 11.0 | earmv4 | bedtools-2.31.1.tgz
NetBSD 11.0 | earmv4 | bedtools-2.31.1.tgz
NetBSD 11.0 | earmv4 | bedtools-2.31.1.tgz
NetBSD 11.0 | earmv6hf | bedtools-2.31.1.tgz
NetBSD 11.0 | earmv6hf | bedtools-2.31.1.tgz
NetBSD 11.0 | earmv7hf | bedtools-2.31.1.tgz
NetBSD 11.0 | earmv7hf | bedtools-2.31.1.tgz
NetBSD 11.0 | i386 | bedtools-2.31.1.tgz
NetBSD 11.0 | i386 | bedtools-2.31.1.tgz
NetBSD 11.0 | m68k | bedtools-2.31.1.tgz
NetBSD 11.0 | m68k | bedtools-2.31.1.tgz
NetBSD 11.0 | mips64eb | bedtools-2.31.1.tgz
NetBSD 11.0 | mips64eb | bedtools-2.31.1.tgz
NetBSD 11.0 | powerpc | bedtools-2.31.1.tgz
NetBSD 11.0 | powerpc | bedtools-2.31.1.tgz
NetBSD 11.0 | riscv64 | bedtools-2.31.1.tgz
NetBSD 11.0 | riscv64 | bedtools-2.31.1.tgz
NetBSD 11.0 | riscv64 | bedtools-2.31.1.tgz
NetBSD 11.0 | x86_64 | bedtools-2.31.1.tgz
NetBSD 11.0 | x86_64 | bedtools-2.31.1.tgz
NetBSD 9.0 | aarch64 | bedtools-2.31.1.tgz
NetBSD 9.0 | aarch64 | bedtools-2.31.1.tgz
NetBSD 9.0 | earmv4 | bedtools-2.31.1.tgz
NetBSD 9.0 | earmv6hf | bedtools-2.31.1.tgz
NetBSD 9.0 | earmv6hf | bedtools-2.31.1.tgz
NetBSD 9.0 | earmv7hf | bedtools-2.31.1.tgz
NetBSD 9.0 | earmv7hf | bedtools-2.31.1.tgz
NetBSD 9.0 | i386 | bedtools-2.31.1.tgz
NetBSD 9.0 | i386 | bedtools-2.31.1.tgz
NetBSD 9.0 | powerpc | bedtools-2.31.1.tgz
NetBSD 9.0 | x86_64 | bedtools-2.31.1.tgz

Binary packages can be installed with the high-level tool pkgin (which can be installed with pkg_add) or pkg_add(1) (installed by default). The NetBSD packages collection is also designed to permit easy installation from source.

## Available build options

(none)

## Known vulnerabilities

(no vulnerabilities known)

The pkg_admin audit command locates any installed package which has been mentioned in security advisories as having vulnerabilities.

Please note the vulnerabilities database might not be fully accurate, and not every bug is exploitable with every configuration.

Problem reports, updates or suggestions for this package should be reported with send-pr.