[med-svn] [r-bioc-edger] 02/03: Updated version 3.18.1+dfsg from 'upstream/3.18.1+dfsg'

[Andreas Tille]

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

commit 94e059f316b26a9e6571f912e518c72ae4e875e3
Merge: c6edb7c 3caac50
Author: Andreas Tille <tille at debian.org>
Date:   Fri Sep 8 21:00:40 2017 +0200

    Updated version 3.18.1+dfsg from 'upstream/3.18.1+dfsg'
    
    with Debian dir d676032c6ca9ce8b828ffc0a57e0a4bd2f95c259

 DESCRIPTION                    |   6 ++--
 NAMESPACE                      |   9 ++----
 R/S3methods.R                  |   2 +-
 R/decidetestsDGE.R             |  57 +++++++++++++++++++++++++++++-----
 R/gini.R                       |  11 +++++--
 R/glmfit.R                     |   5 ++-
 R/normalizeChIPtoInput.R       |   6 ++--
 R/plotMD.R                     |  42 +++++++++++++++++++++----
 R/topTags.R                    |   2 +-
 build/vignette.rds             | Bin 228 -> 228 bytes
 inst/NEWS.Rd                   |  27 ++++++++++++++++
 inst/doc/edgeR.pdf             | Bin 45765 -> 45765 bytes
 man/addPriorCount.Rd           |   9 ++++++
 man/decidetestsDGE.Rd          |  68 ++++++++++++++++++++++++++++-------------
 man/dim.Rd                     |   7 -----
 man/estimateDisp.Rd            |   4 +--
 man/gini.Rd                    |   2 +-
 man/nbinomDeviance.Rd          |   6 ++--
 man/plotMD.Rd                  |  34 ++++++++++++---------
 man/topTags.Rd                 |   2 +-
 src/R_initialize_levenberg.cpp |  17 ++++++-----
 src/R_levenberg.cpp            |  26 +++++++++++-----
 src/adj_coxreid.cpp            |   1 +
 src/fmm_spline.c               |  17 ++++++-----
 src/glm_levenberg.cpp          |   7 +++--
 tests/edgeR-Tests.Rout.save    |  28 ++++++++---------
 26 files changed, 275 insertions(+), 120 deletions(-)

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