[med-svn] [r-bioc-limma] branch upstream updated (decb5cf -> d85c65f)

[Gordon Ball]

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

chronitis-guest pushed a change to branch upstream
in repository r-bioc-limma.

      from  decb5cf   Imported Upstream version 3.28.10+dfsg
       new  d85c65f   Imported Upstream version 3.28.17+dfsg

The 1 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.


Summary of changes:
 DESCRIPTION                 |   9 ++--
 NAMESPACE                   |   2 +-
 R/alias2Symbol.R            | 110 ++++++++++++++++++--------------------------
 R/combine.R                 |   4 +-
 R/geneset-camera.R          |   2 +-
 R/geneset-fry.R             |  13 ++++--
 R/geneset-roast.R           |  13 ++++--
 R/goana.R                   |  53 ++++++++-------------
 R/kegga.R                   |   6 +--
 R/lmfit.R                   |   5 +-
 R/norm.R                    |   4 +-
 R/plots-fit.R               |  16 ++++---
 build/vignette.rds          | Bin 229 -> 230 bytes
 inst/doc/changelog.txt      |  40 ++++++++++++++++
 inst/doc/intro.pdf          | Bin 46191 -> 46191 bytes
 man/alias2Symbol.Rd         |  28 +++++++++--
 man/ebayes.Rd               |   4 +-
 man/fitfdist.Rd             |   2 +-
 man/getEAWP.Rd              |   3 ++
 man/goana.Rd                |   8 +++-
 man/ids2indices.Rd          |   6 +--
 man/removeBatchEffect.Rd    |  35 +++++++++-----
 man/squeezeVar.Rd           |   5 +-
 tests/limma-Tests.Rout.save |  16 +++----
 24 files changed, 220 insertions(+), 164 deletions(-)

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