[med-svn] [r-bioc-edger] 02/07: Merge tag 'upstream/3.2.4_dfsg'

[Charles Plessy]

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

commit 93a34f5da304118fe7d106f8edd27426e5a1ff48
Merge: ae81c49 543a589
Author: Charles Plessy <plessy at debian.org>
Date:   Mon Aug 5 19:03:58 2013 +0900

    Merge tag 'upstream/3.2.4_dfsg'
    
    Upstream version 3.2.4~dfsg

 DESCRIPTION            |    6 ++---
 NAMESPACE              |   13 ++++++-----
 R/S3methods.R          |   49 +++++++++++++++++++++++++++++++++++++++
 R/calcNormFactors.R    |   22 ++++++++++++------
 R/classes.R            |   59 ++++++++++++++---------------------------------
 R/cutWithMinN.R        |    2 +-
 R/dispBinTrend.R       |   22 ++++++++++++++----
 R/estimateDisp.R       |    6 ++++-
 R/plotMDS.DGEList.R    |   13 +++++------
 R/subsetting.R         |   42 +++++++++++++++++++++++----------
 R/topTags.R            |   46 -------------------------------------
 inst/NEWS.Rd           |   29 +++++++++++++++++++++++
 inst/doc/edgeR.pdf     |  Bin 49354 -> 49354 bytes
 man/DGEExact-class.Rd  |   32 ++++++++++++++++++--------
 man/DGEGLM-class.Rd    |   60 ++++++++++++++++++++++++++++++++++++++++++++++++
 man/DGEGLM.Rd          |   51 ----------------------------------------
 man/DGELRT-class.Rd    |   57 +++++++++++++++++++++++++++++++++++++++++++++
 man/DGELRT.Rd          |   46 -------------------------------------
 man/DGEList-class.Rd   |   11 ++++++---
 man/camera.DGEList.Rd  |   14 ++++-------
 man/cutWithMinN.Rd     |   11 +++++----
 man/dimnames.Rd        |   21 ++++++++---------
 man/dispBinTrend.Rd    |    3 +--
 man/glmfit.Rd          |    2 +-
 man/plotMDS.DGEList.Rd |    8 +------
 man/roast.DGEList.Rd   |   29 +++++++----------------
 man/topTags.Rd         |   19 +++++++++++----
 src/core/glm.h         |    1 +
 28 files changed, 375 insertions(+), 299 deletions(-)

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