Package: stacks (2.68+dfsg-2 and others)

[ Source: stacks  ]

pipeline for building loci from short-read DNA sequences

Stacks is a software pipeline for building loci from short-read sequences, such as those generated on the Illumina platform. Stacks was developed to work with restriction enzyme-based data, such as RAD-seq, for the purpose of building genetic maps and conducting population genomics and phylogeography.

Note that this package installs Stacks such that all commands must be run as: $ stacks <cmdname> <args>

Other Packages Related to stacks

• dep: bsdextrautils

  extra utilities from 4.4BSD-Lite

• dep: libc6 (>= 2.38) [not alpha, ia64, loong64, sh4]

  GNU C Library: Shared libraries
  also a virtual package provided by libc6-udeb

  dep: libc6 (>= 2.40) [sh4]

  dep: libc6 (>= 2.42) [loong64]

• dep: libc6.1 (>= 2.37) [ia64]

  GNU C Library: Shared libraries
  also a virtual package provided by libc6.1-udeb

  dep: libc6.1 (>= 2.38) [alpha]

• dep: libdbi-perl

  Perl Database Interface (DBI)

• dep: libgcc-s1 (>= 3.0) [amd64, arm64, i386, loong64, s390x, x32]

  GCC support library

  dep: libgcc-s1 (>= 3.4) [alpha, riscv64, sh4, sparc64]

  dep: libgcc-s1 (>= 3.4.4) [ppc64, ppc64el]

  dep: libgcc-s1 (>= 3.5) [armhf]

  dep: libgcc-s1 (>= 4.2) [ia64]

• dep: libgcc-s2 (>= 4.2.1) [m68k]

  GCC support library

• dep: libgcc-s4 (>= 4.1.1) [hppa]

  GCC support library

• dep: libgomp1 (>= 6)

  GCC OpenMP (GOMP) support library

• dep: libhts3t64 (>= 1.17)

  C library for high-throughput sequencing data formats

• dep: libstdc++6 (>= 13.1) [ia64, m68k]

  GNU Standard C++ Library v3

  dep: libstdc++6 (>= 14) [not ia64, m68k]

• dep: libunwind8 [ia64]

  library to determine the call-chain of a program - runtime

• dep: python3

  interactive high-level object-oriented language (default python3 version)

• dep: samtools

  processing sequence alignments in SAM, BAM and CRAM formats

• dep: zlib1g (>= 1:1.2.6)

  compression library - runtime

• rec: libspreadsheet-writeexcel-perl

  module to create Excel spreadsheets

• rec: littler

  GNU R scripting and command-line front-end -- transition package
  also a virtual package provided by r-cran-littler

• sug: gdb

  GNU Debugger
  also a virtual package provided by gdb-minimal

Download stacks

Download for all available architectures

Architecture	Version	Package Size	Installed Size	Files
alpha (unofficial port)	2.68+dfsg-2	1,112.6 kB	6,814.0 kB	[list of files]
amd64	2.68+dfsg-2	1,231.5 kB	6,161.0 kB	[list of files]
arm64	2.68+dfsg-2+b1	1,040.3 kB	5,830.0 kB	[list of files]
armhf	2.68+dfsg-2	1,046.8 kB	4,081.0 kB	[list of files]
hppa (unofficial port)	2.68+dfsg-2	1,082.4 kB	5,478.0 kB	[list of files]
i386	2.68+dfsg-2	1,301.0 kB	6,437.0 kB	[list of files]
ia64 (unofficial port)	2.66+dfsg-1+b1	1,286.9 kB	11,193.0 kB	[list of files]
loong64	2.68+dfsg-2	1,121.2 kB	6,341.0 kB	[list of files]
m68k (unofficial port)	2.68+dfsg-2	1,104.3 kB	5,753.0 kB	[list of files]
ppc64 (unofficial port)	2.68+dfsg-2	1,151.5 kB	7,749.0 kB	[list of files]
ppc64el	2.68+dfsg-2	1,170.8 kB	7,109.0 kB	[list of files]
riscv64	2.68+dfsg-2	1,148.9 kB	4,409.0 kB	[list of files]
s390x	2.68+dfsg-2	1,157.7 kB	6,289.0 kB	[list of files]
sh4 (unofficial port)	2.68+dfsg-2	1,348.7 kB	5,689.0 kB	[list of files]
sparc64 (unofficial port)	2.68+dfsg-2	984.4 kB	12,602.0 kB	[list of files]
x32 (unofficial port)	2.68+dfsg-2	1,236.8 kB	5,813.0 kB	[list of files]