geneSLOPE

Package: geneSLOPE
Type: Package
Title: Genome-Wide Association Study with SLOPE
Version: 0.36.6
Date: 2016-02-02
Authors@R: c(person("Damian", "Brzyski", role = "aut"),
person("Christine", "Peterson", role = "aut"),
person("Malgorzata", "Bogdan", role = "aut"),
person("Chiara", "Sabatti", role = "aut"),
person("Piotr", "Sobczyk", email = "piotr.sobczyk@pwr.edu.pl", role = c("cre", "aut")))
Description: Genome-wide association study (GWAS) performed with SLOPE,
short for Sorted L-One Penalized Estimation, a
method for estimating the vector of coefficients in linear model.
In the first step of GWAS, SNPs are clumped according to their correlations and
distances. Then, SLOPE is performed on data where each clump has
one representative.
License: GPL-3
URL: https://github.com/psobczyk/geneSLOPE
BugReports: https://github.com/psobczyk/geneSLOPE/issues
LazyData: TRUE
Depends: R (>= 3.1.3), SLOPE
Imports: ggplot2, bigmemory, grid, utils, stats
Suggests: shiny, knitr, rmarkdown, testthat
VignetteBuilder: knitr
Repository: CRAN
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-02-02 09:36:29 UTC; sobczyk
Author: Damian Brzyski [aut],
Christine Peterson [aut],
Malgorzata Bogdan [aut],
Chiara Sabatti [aut],
Piotr Sobczyk [cre, aut]
Maintainer: Piotr Sobczyk <piotr.sobczyk@pwr.edu.pl>
Date/Publication: 2016-02-02 12:34:31

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'geneSLOPE' ...
** package 'geneSLOPE' successfully unpacked and MD5 sums checked
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'geneSLOPE'
    finding HTML links ... done
    clump_snps                              html  
    clumpingResult                          html  
    geneSLOPE                               html  
    finding level-2 HTML links ... done

    gui_geneSLOPE                           html  
Rd warning: /tmp/RtmpO43N8r/R.INSTALL13c6f58b383/geneSLOPE/man/gui_geneSLOPE.Rd:17: missing file link 'shiny'
    identify_clump                          html  
    identify_clump.clumpingResult           html  
    identify_clump.selectionResult          html  
    phenotypeData                           html  
    plot.clumpingResult                     html  
    plot.selectionResult                    html  
    print.clumpingResult                    html  
    print.phenotypeData                     html  
    print.screeningResult                   html  
    print.selectionResult                   html  
    read_phenotype                          html  
    screen_snps                             html  
    screeningResult                         html  
    select_snps                             html  
Rd warning: /tmp/RtmpO43N8r/R.INSTALL13c6f58b383/geneSLOPE/man/select_snps.Rd:15: missing file link 'create_lambda'
    selectionResult                         html  
    summary.clumpingResult                  html  
    summary.phenotypeData                   html  
    summary.screeningResult                 html  
    summary.selectionResult                 html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (geneSLOPE)
Making 'packages.html' ... done