[med-svn] [r-bioc-edger] 09/12: Merge tag 'upstream/3.6.7+dfsg'

[Andreas Tille]

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

commit 2cee69b992752318bfc8d1ef368aabdcac8f39af
Merge: 279b010 358f03f
Author: Andreas Tille <tille at debian.org>
Date:   Fri Aug 8 15:25:49 2014 +0200

    Merge tag 'upstream/3.6.7+dfsg'
    
    Upstream version 3.6.7+dfsg

 DESCRIPTION                          |    16 +-
 NAMESPACE                            |    16 +-
 R/DGEList.R                          |    15 +-
 R/aveLogCPM.R                        |     4 +-
 R/edgeRUsersGuide.R                  |     2 +-
 R/maximizeQuadratic.R                |     4 +-
 R/residDF.R                          |    39 +-
 R/subsetting.R                       |     3 +-
 build/vignette.rds                   |   Bin 228 -> 229 bytes
 data/NC1.txt                         | 17704 -------------------------
 data/NC2.txt                         | 16271 -----------------------
 data/Tu102.txt                       | 22714 ---------------------------------
 data/Tu98.txt                        | 18795 ---------------------------
 data/datalist                        |     4 -
 inst/NEWS.Rd                         |     8 +
 inst/doc/edgeR.pdf                   |   Bin 48051 -> 48051 bytes
 man/DGEExact-class.Rd                |    10 +-
 man/DGEGLM-class.Rd                  |    37 +-
 man/DGELRT-class.Rd                  |    24 +-
 man/DGEList-class.Rd                 |    28 +-
 man/DGEList.Rd                       |     5 +-
 man/Tu102.Rd                         |    22 -
 man/WLEB.Rd                          |     3 +-
 man/aveLogCPM.Rd                     |    11 +-
 man/dispBinTrend.Rd                  |     5 +-
 man/dispCoxReidInterpolateTagwise.Rd |     6 +-
 man/edgeRUsersGuide.Rd               |     2 +-
 man/estimateDisp.Rd                  |    16 +-
 man/estimateGLMCommonDisp.Rd         |     7 +-
 man/estimateGLMRobustDisp.Rd         |     5 +-
 man/estimateGLMTagwiseDisp.Rd        |     7 +-
 man/estimateGLMTrendedDisp.Rd        |     3 +-
 man/gof.Rd                           |     3 +-
 man/meanvar.Rd                       |    22 +-
 man/normalizeChIPtoInput.Rd          |     6 +-
 man/plotExonUsage.Rd                 |     3 +-
 man/plotMDS.DGEList.Rd               |     6 +-
 man/plotSmear.Rd                     |     3 +-
 man/spliceVariants.Rd                |     3 +-
 src/R_cr_adjust.cpp                  |     2 +-
 src/adj_coxreid.cpp                  |    17 +-
 tests/edgeR-Tests.Rout.save          |   183 +-
 42 files changed, 309 insertions(+), 75725 deletions(-)

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