./biology/stacks, Software pipeline for building loci from short-read sequences

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Branch: CURRENT, Version: 2.68, Package name: stacks-2.68, Maintainer: bacon

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.


Required to run:
[lang/perl5] [lang/gcc49-libs] [lang/python37]

Required to build:
[lang/gcc49] [pkgtools/cwrappers]

Master sites:

Filesize: 15188.316 KB

Version history: (Expand)

CVS history: (Expand)


   2025-01-18 14:52:23 by Jason Bacon | Files touched by this commit (4) 
Log message:
biology/stacks: Update to 2.68

Numerous fixes and improvements since 2.6
Changes: http://catchenlab.life.illinois.edu/stacks/changelog.php
   2023-08-14 07:25:36 by Thomas Klausner | Files touched by this commit (1247) 
Log message:
*: recursive bump for Python 3.11 as new default
   2022-06-30 13:19:02 by Nia Alarie | Files touched by this commit (524) 
Log message:
*: Revbump packages that use Python at runtime without a PKGNAME prefix
   2022-06-28 13:38:00 by Thomas Klausner | Files touched by this commit (3952) 
Log message:
*: recursive bump for perl 5.36
   2022-04-25 16:36:19 by Tobias Nygren | Files touched by this commit (1) 
Log message:
stacks: needs -lsocket on SunOS
   2022-04-25 16:34:06 by Tobias Nygren | Files touched by this commit (7) 
Log message:
stacks: avoid ambiguous math functions
   2022-03-18 00:49:08 by Jason Bacon | Files touched by this commit (3) 
Log message:
biology/stacks: Update to 2.60

Numerous bug fixes and enhancements since 2.2
Unbreak build on Darwin
   2021-10-26 12:03:45 by Nia Alarie | Files touched by this commit (73) 
Log message:
biology: Replace RMD160 checksums with BLAKE2s checksums

All checksums have been double-checked against existing RMD160 and
SHA512 hashes