[Cdd-commits] r1070 - projects/med/trunk/debian-med/tasks

[CDD Subversion Commit]

Author: tille
Date: Tue Sep  9 07:15:41 2008
New Revision: 1070

Modified:
   projects/med/trunk/debian-med/tasks/bio
Log:
Added r-happy


Modified: projects/med/trunk/debian-med/tasks/bio
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio	(original)
+++ projects/med/trunk/debian-med/tasks/bio	Tue Sep  9 07:15:41 2008
@@ -2347,3 +2347,48 @@
  .
  This package is included into BioLinux distribution
  http://envgen.nox.ac.uk/biolinux.html
+
+Depends: r-happy
+Homepage: http://www.well.ox.ac.uk/happy/
+License: GPL
+Responsible: BioLinux - Stewart Houten <shou at ceh.ac.uk>
+Pkg-URL: http://nebc.nox.ac.uk/bio-linux/dists/unstable/bio-linux/binary-i386/
+Pkg-Description: Multipoint QTL Mapping in Genetically Heterogeneous Animals
+ Most phenotypes of medical importance can be measured quantitatively,
+ and in many cases the genetic contribution is substantial, accounting
+ for 40% or more of the phenotypic variance. Considerable efforts have
+ been made to isolate the genes responsible for quantitative genetic
+ variation in human populations, but with little success, mostly
+ because genetic loci contributing to quantitative traits
+ (quantitative trait loci, QTL) have only a small effect on the
+ phenotype. Association studies have been proposed as the most
+ appropriate method for finding the genes that influence complex
+ traits. However, family-based studies may not provide the resolution
+ needed for positional cloning, unless they are very large, while
+ environmental or genetic differences between cases and controls may
+ confound population-based association studies.
+ .
+ These difficulties have led to the study of animal models of human
+ traits. Studies using experimental crosses between inbred animal
+ strains have been successful in mapping QTLs with effects on a number
+ of different phenotypes, including behaviour, but attempts to
+ fine-map QTLs in animals have often foundered on the discovery that a
+ single QTL of large effect was in fact due to multiple loci of small
+ effect positioned within the same chromosomal region. A further
+ potential difficulty with detecting QTLs between inbred crosses is
+ the significant reduction in genetic heterogeneity compared to the
+ total genetic variation present in animal populations: a QTL
+ segregating in the wild need not be present in the experimental
+ cross. 
+ .
+ HAPPY was written to find QTLs in HS animals. It uses a multipoint
+ analysis which offers significant improvements in statistical power
+ to detect QTLs over that achieved by single-marker
+ association. Further details can be found in
+ Proc. Natl. Acad. Sci. USA, 10.1073/pnas.230304397.
+ .
+ The BioLinux distribution http://envgen.nox.ac.uk/biolinux.html
+ contains a happy package which seems to be the version in C which
+ depends from the non-free NAG library.  We should package the R based
+ version available at http://www.well.ox.ac.uk/happy/happyR.shtml
+ which is entirely free.