haplo.stats

Package: haplo.stats
Version: 1.7.7
Date: 2016-04-01
Title: Statistical Analysis of Haplotypes with Traits and Covariates
when Linkage Phase is Ambiguous
Author: Sinnwell JP, Schaid DJ
Maintainer: Jason P. Sinnwell <sinnwell.jason@mayo.edu>
Description: Routines for the analysis of indirectly measured haplotypes. The statistical methods assume that all subjects are unrelated and that haplotypes are ambiguous (due to unknown linkage phase of the genetic markers). The main functions are: haplo.em(), haplo.glm(), haplo.score(), and haplo.power(); all of which have detailed examples in the vignette.
License: GPL (>= 2)
Depends: R (>= 3.0.0), methods, stats, graphics
Imports: rms
Suggests: R.rsp
VignetteBuilder: R.rsp
URL:
http://www.mayo.edu/research/labs/statistical-genetics-genetic-epidemiology/software
NeedsCompilation: yes
Packaged: 2016-04-05 20:39:51 UTC; sinnwell
Repository: CRAN
Date/Publication: 2016-04-06 01:10:36

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'haplo.stats' ...
** package 'haplo.stats' successfully unpacked and MD5 sums checked
** libs
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c groupsum.c -o groupsum.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c haplo_em_pin.c -o haplo_em_pin.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c louis_info.c -o louis_info.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c seqhap.c -o seqhap.o
gcc -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o haplo.stats.so groupsum.o haplo_em_pin.o louis_info.o seqhap.o -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/haplo.stats/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'haplo.stats'
    finding HTML links ... done
    Ginv                                    html  
    anova.haplo.glm                         html  
    chisq.power                             html  
    f.power                                 html  
    find.haplo.beta.qt                      html  
    fitted.haplo.glm                        html  
    geno.count.pairs                        html  
    geno1to2                                html  
    get.hapPair                             html  
    hapPower.demo                           html  
    haplo.cc                                html  
    haplo.design                            html  
    haplo.em                                html  
    haplo.em.control                        html  
    haplo.em.fitter                         html  
    haplo.glm                               html  
    haplo.glm.control                       html  
    haplo.group                             html  
    haplo.hash                              html  
    haplo.model.frame                       html  
    haplo.power.cc                          html  
    haplo.power.qt                          html  
    haplo.scan                              html  
    haplo.score                             html  
    haplo.score.merge                       html  
    haplo.score.slide                       html  
    hla.demo                                html  
    internalHaploStats                      html  
    locator.haplo                           html  
    locus                                   html  
    louis.info                              html  
    na.geno.keep                            html  
    plot.haplo.score                        html  
    plot.haplo.score.slide                  html  
    plot.seqhap                             html  
    print.haplo.cc                          html  
    print.haplo.em                          html  
    print.haplo.group                       html  
    print.haplo.scan                        html  
    print.haplo.score                       html  
    print.haplo.score.merge                 html  
    print.haplo.score.slide                 html  
    printBanner                             html  
    residuals.haplo.glm                     html  
    score.sim.control                       html  
    seqhap                                  html  
    seqhap.dat                              html  
    setupGeno                               html  
    summary.haplo.em                        html  
    summary.haplo.glm                       html  
    summaryGeno                             html  
    vcov.haplo.glm                          html  
    x.sexcheck                              html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (haplo.stats)
Making 'packages.html' ... done