Fedora 19 Update: R-qtl-1.33.7-1.fc19

[updates at fedoraproject.org]

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Fedora Update Notification
FEDORA-2014-12758
2014-10-14 03:33:45
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Name        : R-qtl
Product     : Fedora 19
Version     : 1.33.7
Release     : 1.fc19
URL         : http://www.rqtl.org/
Summary     : Tools for analyzing QTL experiments
Description :
R-qtl is an extensible, interactive environment for mapping
quantitative trait loci (QTLs) in experimental crosses. Our goal is to
make complex QTL mapping methods widely accessible and allow users to
focus on modeling rather than computing.

A key component of computational methods for QTL mapping is the hidden
Markov model (HMM) technology for dealing with missing genotype
data. We have implemented the main HMM algorithms, with allowance for
the presence of genotyping errors, for backcrosses, intercrosses, and
phase-known four-way crosses.

The current version of R-qtl includes facilities for estimating
genetic maps, identifying genotyping errors, and performing single-QTL
genome scans and two-QTL, two-dimensional genome scans, by interval
mapping (with the EM algorithm), Haley-Knott regression, and multiple
imputation. All of this may be done in the presence of covariates
(such as sex, age or treatment). One may also fit higher-order QTL
models by multiple imputation and Haley-Knott regression.

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Update Information:

Version 1.33, 2014-08-12:

Major changes:
* Can read/write 4-way cross data in MapQTL format (thanks to Timothee Flutre).

Minor changes:
* read.cross with format="qtlcart" can now read doubled haploids (dh/Ri0).
* Fixed potential problem in read.cross with format="csv" or "csvs" when there are many empty cells in the phenotype data.
* Fixed bug in read.cross for format="csv" that shows up in some rare cases: markers not ordered by linkage group, no positions provided, and chromosome IDs non-numeric. It was a pretty bad bug, as marker genotypes got scrambled.
* Fixed some memory leaks in MQM code.

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ChangeLog:

* Mon Oct 13 2014 Mattias Ellert <mattias.ellert at fysast.uu.se> - 1.33.7-1
- Update to 1.33.7
* Fri Aug 15 2014 Fedora Release Engineering <rel-eng at lists.fedoraproject.org> - 1.32.10-5
- Rebuilt for https://fedoraproject.org/wiki/Fedora_21_22_Mass_Rebuild
* Thu Jul 17 2014 Mattias Ellert <mattias.ellert at fysast.uu.se> - 1.32.10-4
- Remove stack limit workaround (bug fixed in R 3.1.1)
* Tue Jul  1 2014 Jakub Čajka <jcajka at redhat.com> - 1.32.10-3
- Changed stack limit on ppc64 and s390x to allow checks to pass
* Sat Jun 28 2014 Mattias Ellert <mattias.ellert at fysast.uu.se> - 1.32.10-2
- Disable checks on ppc64
* Wed Jun 25 2014 Mattias Ellert <mattias.ellert at fysast.uu.se> - 1.32.10-1
- Update to 1.32.10
- Use R-core-devel instead of R-devel as BR
- Re-enable checks
* Fri Jun  6 2014 Fedora Release Engineering <rel-eng at lists.fedoraproject.org> - 1.31.9-2
- Rebuilt for https://fedoraproject.org/wiki/Fedora_21_Mass_Rebuild
* Thu May  8 2014 Tom Callaway <spot at fedoraproject.org> - 1.31.9-1
- Update to 1.31.9
* Sat Dec 21 2013 Mattias Ellert <mattias.ellert at fysast.uu.se> - 1.29.2-1
- Update to 1.29.2
- Add BR for blas-devel and lapack-devel
* Tue Oct 15 2013 Mattias Ellert <mattias.ellert at fysast.uu.se> - 1.28.19-1
- Update to 1.28.19
* Fri Aug  2 2013 Fedora Release Engineering <rel-eng at lists.fedoraproject.org> - 1.27.10-3
- Rebuilt for https://fedoraproject.org/wiki/Fedora_20_Mass_Rebuild
* Wed Apr 17 2013 Tom Callaway <spot at fedoraproject.org> - 1.27.10-2
- rebuild for R3
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This update can be installed with the "yum" update program.  Use
su -c 'yum update R-qtl' at the command line.
For more information, refer to "Managing Software with yum",
available at http://docs.fedoraproject.org/yum/.

All packages are signed with the Fedora Project GPG key.  More details on the
GPG keys used by the Fedora Project can be found at
https://fedoraproject.org/keys
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