gatk - Variant discovery in high-throughput sequencing data

Property Value
Distribution FreeBSD 12
Repository FreeBSD Ports Latest amd64
Package filename gatk-
Package name gatk
Package version
Package release -
Package architecture amd64
Package type txz
Category biology java
Download size 203.06 MB
Installed size 229.91 MB
GATK, pronounced "Gee Ay Tee Kay" (not "Gat-Kay"), stands for
GenomeAnalysisToolkit. It is a collection of command-line tools for analyzing
high-throughput sequencing data with a primary focus on variant discovery. The
tools can be used individually or chained together into complete workflows.
end-to-end workflows are provided, called GATK Best Practices, tailored for
specific use cases.
Developed in the Data Sciences Platform at the Broad Institute, the toolkit
offers a wide variety of tools with a primary focus on variant discovery and
genotyping. Its powerful processing engine and high-performance computing
features make it capable of taking on projects of any size.


Package Version Architecture Repository
gatk- i386 FreeBSD Ports Latest
gatk- i386 FreeBSD Ports Quarterly
gatk- amd64 FreeBSD Ports Quarterly
gatk - - -


Name Value
gettext-runtime = 0.20.1
openjdk8 =


Type URL
Binary Package gatk-
Source Package biology/gatk

Install Howto

Install gatk txz package:

# pkg install gatk

See Also

Package Description
gatling-0.15_2.txz High performance webserver with scalability benchmark tools
gau2grid-2.0.1.txz Fast computation of a gaussian and its derivative on a grid
gauche-0.9.8.txz Scheme script interpreter with multibyte character handling
gauche-gl-0.6_4.txz OpenGL binding for Gauche
gauche-makiki-0.3.txz Simple multithreaded HTTP server written in Gauche
gauche-readline-0.1_2.txz Pure gauche/scheme implementation of the Readline library
gaul-0.1849.0_5.txz Genetic Algorithm Utility Library
gaupol-1.4.3.txz Subtitle editor
gavl-1.4.0_4.txz Library for handling uncompressed video and audio data
gawk-5.0.0.txz GNU version of AWK scripting language
gazpacho-0.7.2_7.txz GUI builder for the GTK+ toolkit
gb-0.4.4.txz Project based build tool for Go
gbase-0.5_8.txz Program to convert between the 4 common bases used in programming
gbdfed-1.6_1.txz GTK2 bitmap font editor
gbe-0.0.22_3.txz Nintendo GameBoy(tm) emulator with GNU source code