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[ Source: gsort  ]

Package: gsort (0.1.4-3 and others)

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sort genomic data

gsort is a tool to sort genomic files according to a genomefile. For example, to sort VCF to have order: X, Y, 2, 1, 3, ... and the header needs to be kept at the top.

As a more likely example, if a file nneds to be sorted to match GATK order (1 ... X, Y, MT) which is not possible with any other sorting tool. With gsort one can simply place MT as the last chrom in the ".genome" file.

It will also be useful for getting files ready for use in bedtools.

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Download gsort

Download for all available architectures
Architecture Version Package Size Installed Size Files
amd64 0.1.4-3+b6 1,705.1 kB5,379.0 kB [list of files]
arm64 0.1.4-3+b6 1,454.0 kB4,966.0 kB [list of files]
armel 0.1.4-3+b6 1,485.7 kB4,613.0 kB [list of files]
armhf 0.1.4-3+b6 1,480.4 kB4,613.0 kB [list of files]
i386 0.1.4-3+b6 1,620.6 kB4,579.0 kB [list of files]
mips64el 0.1.4-3+b6 1,375.7 kB5,457.0 kB [list of files]
mipsel 0.1.4-3+b6 1,400.7 kB5,105.0 kB [list of files]
ppc64el 0.1.4-3+b6 1,429.0 kB5,030.0 kB [list of files]
s390x 0.1.4-3+b6 1,559.0 kB5,289.0 kB [list of files]