[med-svn] [r-bioc-genefilter] 13/14: Updated version 1.58.1 from 'upstream/1.58.1'

[Andreas Tille]

This is an automated email from the git hooks/post-receive script.

tille pushed a commit to branch master
in repository r-bioc-genefilter.

commit 506a1f77386cbe2f551d24517312ac38d87dc98b
Merge: 9c77d34 4aba7da
Author: Andreas Tille <tille at debian.org>
Date:   Mon Oct 2 15:07:44 2017 +0200

    Updated version 1.58.1 from 'upstream/1.58.1'
    
    with Debian dir ad8b1370a8d9909539d0c7f282a9d389e4dc50f6

 .Rinstignore                              |    1 +
 DESCRIPTION                               |   23 +
 NAMESPACE                                 |  129 ++
 NEWS                                      |    7 +
 R/AllClasses.R                            |   35 +
 R/AllGenerics.R                           |   43 +
 R/all.R                                   |  183 +++
 R/dist2.R                                 |   21 +
 R/eSetFilter.R                            |  320 +++++
 R/fastT.R                                 |   32 +
 R/filter_volcano.R                        |   57 +
 R/filtered_p.R                            |   37 +
 R/genefinder.R                            |  143 +++
 R/half.range.mode.R                       |   51 +
 R/kappa_p.R                               |   10 +
 R/nsFilter.R                              |  264 ++++
 R/rejection_plot.R                        |   79 ++
 R/rowROC-accessors.R                      |  153 +++
 R/rowSds.R                                |    9 +
 R/rowpAUCs-methods.R                      |   86 ++
 R/rowttests-methods.R                     |  215 ++++
 R/shorth.R                                |   48 +
 R/zzz.R                                   |    9 +
 build/vignette.rds                        |  Bin 0 -> 480 bytes
 data/tdata.R                              | 1952 +++++++++++++++++++++++++++++
 docs/Cluster.pdf                          |  Bin 0 -> 370 bytes
 docs/gcluster.tex                         |   30 +
 docs/gfilter.tex                          |  252 ++++
 inst/doc/howtogenefilter.R                |  107 ++
 inst/doc/howtogenefilter.Rnw              |  212 ++++
 inst/doc/howtogenefilter.pdf              |  Bin 0 -> 115979 bytes
 inst/doc/howtogenefinder.R                |   28 +
 inst/doc/howtogenefinder.Rnw              |  111 ++
 inst/doc/howtogenefinder.pdf              |  Bin 0 -> 153021 bytes
 inst/doc/independent_filtering.R          |  152 +++
 inst/doc/independent_filtering.Rnw        |  468 +++++++
 inst/doc/independent_filtering.pdf        |  Bin 0 -> 623647 bytes
 inst/doc/independent_filtering_plots.R    |   79 ++
 inst/doc/independent_filtering_plots.Rnw  |  238 ++++
 inst/doc/independent_filtering_plots.pdf  |  Bin 0 -> 441792 bytes
 inst/wFun/Anova.xml                       |   30 +
 inst/wFun/coxfilter.xml                   |   30 +
 inst/wFun/cv.xml                          |   30 +
 inst/wFun/gapFilter.xml                   |   46 +
 inst/wFun/kOverA.xml                      |   30 +
 inst/wFun/maxA.xml                        |   22 +
 inst/wFun/pOverA.xml                      |   30 +
 inst/wFun/ttest.xml                       |   30 +
 man/Anova.Rd                              |   44 +
 man/coxfilter.Rd                          |   38 +
 man/cv.Rd                                 |   37 +
 man/dist2.Rd                              |   67 +
 man/eSetFilter.Rd                         |   58 +
 man/filter_volcano.Rd                     |   81 ++
 man/filtered_p.Rd                         |   87 ++
 man/filterfun.Rd                          |   37 +
 man/findLargest.Rd                        |   45 +
 man/gapFilter.Rd                          |   51 +
 man/genefilter.Rd                         |   54 +
 man/genefinder.Rd                         |   98 ++
 man/genescale.Rd                          |   42 +
 man/half.range.mode.Rd                    |  105 ++
 man/kOverA.Rd                             |   31 +
 man/kappa_p.Rd                            |   42 +
 man/maxA.Rd                               |   33 +
 man/nsFilter.Rd                           |  206 +++
 man/pOverA.Rd                             |   39 +
 man/rejection_plot.Rd                     |  111 ++
 man/rowFtests.Rd                          |  188 +++
 man/rowROC-class.Rd                       |  103 ++
 man/rowSds.Rd                             |   37 +
 man/rowpAUCs.Rd                           |  133 ++
 man/shorth.Rd                             |   75 ++
 man/tdata.Rd                              |   22 +
 man/ttest.Rd                              |   53 +
 src/genefilter.h                          |    9 +
 src/half_range_mode.cpp                   |  125 ++
 src/init.c                                |   15 +
 src/nd.c                                  |  346 +++++
 src/pAUC.c                                |  179 +++
 src/rowPAUCs.c                            |  225 ++++
 src/rowttests.c                           |  218 ++++
 src/ttest.f                               |   64 +
 vignettes/howtogenefilter.Rnw             |  212 ++++
 vignettes/howtogenefinder.Rnw             |  111 ++
 vignettes/independent_filtering.Rnw       |  468 +++++++
 vignettes/independent_filtering_plots.Rnw |  238 ++++
 vignettes/library.bib                     |  172 +++
 88 files changed, 10131 insertions(+)

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