[R] programs for genetics - haplo.score for R

[Roger Peng]

It would appear that Gregory Warnes has ported it to R and the package
`haplo.score' can be downloaded from CRAN (http://cran.r-project.org).

-roger
_______________________________
UCLA Department of Statistics
rpeng at stat.ucla.edu
http://www.stat.ucla.edu/~rpeng

On Fri, 14 Feb 2003, Shona Livingstone wrote:

> <color><param>0100,0100,0100</param>Dear All,
> 
> I wish to use a suite of programs called "haplo.score" first written in S plus by 
> Rowland et al of the Mayo clinic (details given below). Unfortunately, I do not 
> have S plus available to me at the moment
> 
> 
> Has anyone written the equivalent for R? 
> 
> 
> Any pointers will be appreciated, bearing in mind that I am new to R.
> 
> 
> Thank you for your help
> 
> Shona Livingstone
> 
> Epidemiology and Public Health, UCL
> 
> 
> *****************************
> 
> <bold><FontFamily><param>Arial</param><smaller>haplo.score
> 
> <italic>Score Tests for Association of Traits with Haplotypes when
> 
> Linkage Phase is Ambiguous
> 
> </italic></bold><FontFamily><param>Times New Roman</param>Charles M. Rowland, David E. Tines, and Daniel J. Schaid
> 
> Mayo Clinic
> 
> Rochester, MN
> 
> E-mail contact: rowland at mayo.edu
> 
> <bold><FontFamily><param>Arial</param>I
> 
> [</bold><FontFamily><param>Times New Roman</param>A suite of S-PLUS routines, referred to as "haplo.score", can be used to compute score 
> statistics to
> 
> test associations between haplotypes and a wide variety of traits, including binary, 
> ordinal,
> 
> quantitative, and Poisson. These methods assume that all subjects are unrelated and that 
> haplotypes
> 
> are ambiguous (due to unknown linkage phase of the genetic markers). The methods 
> provide
> 
> several different global and haplotype-specific tests for association, as well as provide 
> adjustment
> 
> for non-genetic covariates and computation of simulation p-values (which may be 
> needed for
> 
> sparse data). Details on the background and theory of the score statistics can be found 
> in the
> 
> following reference:
> 
> Schaid DJ, Rowland CM, Tines DE, Jacobson RM, Poland GA. Score tests for
> 
> association of traits with haplotypes when linkage phase is ambiguous. American J
> 
> Human Genetics, February, 2002.]
> 
> 
> <nofill>
> 
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